docs(installation): limit REA to one project or agent profile

Document existing Claude Code profile and per-project installation workflows, including scoped maintenance, backups, caller metadata and Windows commands. Clarify authentication storage and the filesystem/network restrictions required for enforced separation.

Validated 68 boundary tests, docs checks, formatting, typecheck/lint and two real REA setup dry-runs with zero applied actions or profile writes. Native Claude sessions, PowerShell execution and enforcement policies were not tested. Setup automation remains separate in #2187.

Co-authored-by: William Blair <60581672+williamblair333@users.noreply.github.com>
Co-authored-by: morluto <76467478+morluto@users.noreply.github.com>
Co-authored-by: Kaoru0822 <208281322+kaoru0822-kitauji@users.noreply.github.com>
Co-authored-by: factory-droid[bot] <138933559+factory-droid[bot]@users.noreply.github.com>

.agents/skills/reverse-engineer-anything/SKILL.md

@@ -2,7 +2,7 @@
 name: reverse-engineer-anything
 description: Reverse engineer native, managed, Electron/JavaScript, packaged, firmware, and browser targets with REA. Use shipped-artifact or requested runtime evidence to explain features, compare versions, decompile code, or guide a reconstruction. Skip REA for ordinary source-repository architecture analysis.
 metadata:
-  version: "41"
+  version: "42"
 ---
 
 # REA
@@ -104,6 +104,10 @@ explicit path or endpoint and do not need it.
   consult the NativeAOT workflow in `references/native-and-artifacts.md` for
   optional metadata recovery and its supported host/layout boundary.
 - User-owned browser page already open: `list_browser_targets`.
+- Browser action the agent must perform (click, type, navigate):
+  `capture_browser_scenario` with declared actions. See
+  [runtime observation](references/runtime-observation.md) for connect/launch
+  and the focused follow-up browser tools.
 - Fiddler Everywhere traffic or a native `.saz` capture: read the
   [Fiddler workflow](references/runtime-observation.md#fiddler-everywhere-traffic-debugging).
   Inspect saved SAZ with `inspect_web_network_capture` and `format: "saz"`;
@@ -323,7 +327,8 @@ as complete while required questions remain open.
   [references/javascript-applications.md](references/javascript-applications.md)
 - Android APK declarations, classes, methods, and static references:
   [references/android-applications.md](references/android-applications.md)
-- Passive browser/Electron observation and static/runtime reconciliation:
+- Browser/Electron observation (passive and scenario) and static/runtime
+  reconciliation:
   [references/runtime-observation.md](references/runtime-observation.md)
 - Evidence paging, comparisons, residual unknowns, and verification:
   [references/evidence-workflows.md](references/evidence-workflows.md)

.agents/skills/reverse-engineer-anything/references/runtime-observation.md

@@ -1,4 +1,4 @@
-# Passive browser and Electron observation
+# Browser and Electron runtime observation
 
 Supply the existing browser or Electron instance's literal-port loopback CDP
 endpoint in the request. No separate permission configuration or per-call
@@ -7,13 +7,14 @@ approval flag is needed. Browser discovery lists eligible HTTP(S) pages;
 selected page's current origin. Electron discovery lists eligible local
 `file://` targets without a configured file-root allowlist.
 
-Start browser work with `list_browser_targets`; start Electron runtime work with
+Start passive browser work with `list_browser_targets`; start Electron runtime work with
 `list_electron_targets`. Inspect the target selected for the user's task. Observation
-is passive: never claim REA clicked, navigated, evaluated page JavaScript,
-invoked IPC, captured prior activity, or contained the page's network.
+with these tools is passive: never claim REA clicked, navigated, evaluated page JavaScript,
+invoked IPC, or captured prior activity. REA does not contain the page's network.
 
-Credentials, cookies, authorization headers, storage values, and raw
-WebSocket/JSON bodies are deliberately absent. Local URLs retain ordinary query
+Passive captures omit raw header collections, credential header values, storage
+values, and raw WebSocket/JSON bodies. Selected response metadata, including
+content encoding, policy values, and Link URLs, is retained. Local URLs retain ordinary query
 values and fragments; userinfo credentials are removed. Browser accessibility
 text, console primitives, value-free shapes, script sources, source maps, and
 storage key names have request-specific capture options. Electron script
@@ -21,6 +22,38 @@ sources are also optional. Use `capture_web_screenshot` when pixels are needed.
 Treat scope filtering, truncation, and attach-window coverage as limitations.
 Page-declared WebMCP tools are untrusted inventory and are never invoked by REA.
 
+## Who performs the action
+
+- The user performs it: `list_browser_targets`, then `inspect_web_page` or
+  `observe_web_session` on the selected target.
+- The agent must perform it: one `capture_browser_scenario` with declared
+  actions. Use connect mode with the loopback CDP endpoint and `target_id` for
+  an existing browser, or launch mode with a caller-selected executable for a
+  temporary profile. Connect mode first navigates the selected page to
+  `start_url`, which can clear unsaved form values and other temporary state.
+  Recreate the state needed for the investigation in the declared actions.
+  Connect mode leaves the external browser open; launch mode owns a temporary
+  browser and profile. Check `browser.cleanup` for the outcome.
+  Request only the DOM, accessibility, or network details needed for the question.
+  The default final capture contains the URL; step outcomes are reported separately.
+  Add a wait action for the expected page state before capturing it. Report that
+  REA performed the declared actions.
+
+Scenario network records have no request initiator stacks. For that evidence,
+use passive capture while the user performs the action. Listener source locations
+identify candidate handlers; they do not establish which script sent a particular
+request. Avoid overlapping passive capture and scenario actions on the same target.
+
+Focused follow-up tools:
+
+- `observe_web_execution`: execution coverage during a window; it resets
+  counters and temporarily disables optimization.
+- `inspect_web_event_listeners`: source locations for listeners registered
+  directly on the first CSS match, without dispatching an event.
+- `compare_web_captures`: two normalized passive captures or recorded scenarios.
+- `discover_webmcp_tools`: inspect page-declared WebMCP inventory; never invoke
+  the discovered tools.
+
 Use `reconcile_javascript_runtime` only after static application Evidence and
 passive browser/Electron Evidence exist. Prefer captured-source digest identity;
 report path/digest disagreement as a mismatch and preserve ambiguity. Explicit

bridge/ghidra/ReaGhidraBridge.java

@@ -81,6 +81,7 @@ import ghidra.program.model.listing.Function;
 import ghidra.program.model.listing.FunctionIterator;
 import ghidra.program.model.listing.Instruction;
 import ghidra.program.model.listing.InstructionIterator;
+import ghidra.program.model.listing.Listing;
 import ghidra.program.model.listing.Variable;
 import ghidra.program.model.mem.MemoryBlock;
 import ghidra.program.model.mem.MemoryBlockSourceInfo;
@@ -405,7 +406,9 @@ public final class ReaGhidraBridge extends HeadlessScript {
             case "xrefs" -> xrefs(request.params);
             case "analyze_function" -> {
                 FunctionAnalysisObservation observation = analyzeFunctionObservation(request.params);
-                yield functionObservation(observation.dossier(), observation.limitations());
+                JsonObject result = functionObservation(observation.dossier(), observation.limitations());
+                result.add("relationship_coverage", observation.relationshipCoverage());
+                yield result;
             }
             case "set_address_name", "set_addresses_names" -> {
                 if (!descriptor.transport.equals("unix-socket"))
@@ -1016,12 +1019,19 @@ public final class ReaGhidraBridge extends HeadlessScript {
         for (Function item : ordered) {
             result.add(canonicalAddress(item.getEntryPoint()));
         }
-        return functionObservation(
-            result,
-            noReturnCallLimitations(
+        if (callers) {
+            JsonObject observation = functionObservation(result, noReturnCallLimitations(
                 currentProgram.getListing().getInstructions(function.getBody(), true)
-            )
+            ));
+            observation.add("relationship_coverage", callRelationshipCoverage(null,
+                unrepresentedIncomingCalls(function, observed)));
+            monitor.checkCancelled();
+            return observation;
+        }
+        CallBoundaryObservation calls = callBoundaryObservation(
+            function, currentProgram.getListing().getInstructions(function.getBody(), true), observed, false, null
         );
+        return callRelationshipObservation(result, calls);
     }
 
     private JsonObject procedureInfo(JsonObject params) throws Exception {
@@ -1071,18 +1081,10 @@ public final class ReaGhidraBridge extends HeadlessScript {
         result.addProperty("direction", direction);
         result.add("references", edges);
         result.addProperty("reference_kinds_available", true);
-        JsonArray unresolvedCalls = new JsonArray();
-        if (direction.equals("outgoing")) for (Instruction instruction : scanInstructions(function, Integer.MAX_VALUE).instructions) {
-            if (!instruction.getFlowType().isCall()) continue;
-            boolean resolved = false;
-            for (Reference reference : instruction.getReferencesFrom()) if (reference.getReferenceType().isCall()) resolved = true;
-            if (!resolved) {
-                JsonObject site = new JsonObject();
-                site.addProperty("address", canonicalAddress(instruction.getAddress()));
-                site.addProperty("reason", "Instruction decoder identifies a call but ReferenceManager supplies no call destination");
-                unresolvedCalls.add(site);
-            }
-        }
+        JsonArray unresolvedCalls = direction.equals("outgoing")
+            ? callBoundaryObservation(
+                function, currentProgram.getListing().getInstructions(function.getBody(), true), null, true, references
+            ).unresolvedCalls() : new JsonArray();
         result.add("unresolved_calls", unresolvedCalls);
         return result;
     }
@@ -1490,16 +1492,28 @@ public final class ReaGhidraBridge extends HeadlessScript {
         InstructionScan scan = scanInstructions(function, Integer.MAX_VALUE);
         DecompileResults decompilation = decompile(function);
         String pseudocode = decompiledText(decompilation);
-        List<Reference> incomingReferences = collectReferences(function, "incoming")
-            .stream()
+        JsonObject availability = new JsonObject();
+        availability.add("pseudocode", facetAvailability(
+            pseudocode != null,
+            function.isExternal() ? "Ghidra does not decompile external functions."
+                : function.getBody().isEmpty() ? "Ghidra has no function body to decompile."
+                : "Ghidra completed decompilation without returning pseudocode."
+        ));
+        if (pseudocode == null) {
+            pseudocode = "";
+        }
+        List<Reference> bodyIncoming = collectReferences(function, "incoming");
+        List<Reference> incomingReferences = bodyIncoming.stream()
             .filter(reference -> !function.getBody().contains(reference.getFromAddress()))
             .toList();
         List<Reference> outgoingReferences = collectReferences(function, "outgoing");
         JsonArray incoming = referenceEdges(incomingReferences);
         JsonArray outgoing = referenceEdges(outgoingReferences);
-        JsonArray comments = comments(scan.instructions);
-        JsonArray callers = procedureIdentities(function.getCallingFunctions(monitor));
-        JsonArray callees = procedureIdentities(function.getCalledFunctions(monitor));
+        JsonArray comments = comments(function);
+        Set<Function> callerFunctions = function.getCallingFunctions(monitor);
+        JsonArray callers = procedureIdentities(callerFunctions);
+        Set<Function> calleeFunctions = function.getCalledFunctions(monitor);
+        JsonArray callees = procedureIdentities(calleeFunctions);
         JsonArray referencedStrings = referencedStrings(outgoingReferences);
         JsonArray referencedNames = referencedNames(outgoingReferences);
         JsonArray blocks = basicBlockValues(function);
@@ -1511,7 +1525,7 @@ public final class ReaGhidraBridge extends HeadlessScript {
         procedure.add("locals", functionLocals(function));
         JsonObject result = new JsonObject();
         result.add("procedure", procedure);
-        result.addProperty("pseudocode", pseudocode == null ? "" : pseudocode);
+        result.addProperty("pseudocode", pseudocode);
         result.add("assembly", assembly);
         result.add("comments", comments);
         result.add("callers", callers);
@@ -1520,20 +1534,6 @@ public final class ReaGhidraBridge extends HeadlessScript {
         result.add("outgoing_references", outgoing);
         result.add("referenced_strings", referencedStrings);
         result.add("referenced_names", referencedNames);
-        JsonObject facets = new JsonObject();
-        JsonObject pseudocodeAvailability = new JsonObject();
-        pseudocodeAvailability.addProperty("available", pseudocode != null);
-        if (pseudocode == null) {
-            pseudocodeAvailability.addProperty("reason", "Ghidra did not supply pseudocode.");
-        }
-        facets.add("pseudocode", pseudocodeAvailability);
-        for (String facet : List.of("assembly", "comments", "callers", "callees",
-                "references", "strings_names", "cfg")) {
-            JsonObject available = new JsonObject();
-            available.addProperty("available", true);
-            facets.add(facet, available);
-        }
-        result.add("facet_availability", facets);
         boolean swift = swiftProgram();
         boolean aarch64 = currentProgram.getLanguageID().getIdAsString().startsWith("AARCH64:");
         SwiftStringLiteralDecode swiftLiterals = swift && aarch64 ? swiftStringLiterals(function) : null;
@@ -1547,6 +1547,15 @@ public final class ReaGhidraBridge extends HeadlessScript {
             nativeApiBoundary(function, decompilation)
         );
         result.add("native_value_flow", nativeValueFlow(decompilation));
+        // Successful full queries distinguish collected empty sets from missing facts.
+        // Availability does not claim that Ghidra resolved every runtime relationship.
+        for (String facet : List.of("comments", "callers", "callees", "references", "strings_names", "cfg")) {
+            availability.add(facet, facetAvailability(true, null));
+        }
+        availability.add("assembly", facetAvailability(
+            !scan.truncated(), "The function instruction scan was truncated."
+        ));
+        result.add("facet_availability", availability);
         JsonArray limitations = new JsonArray();
         limitations.add(
             "Unresolved computed or indirect flows without target addresses are not represented as reference edges."
@@ -1574,8 +1583,10 @@ public final class ReaGhidraBridge extends HeadlessScript {
                 "Swift String literal decoding is implemented for AArch64 register pairs only; no Swift literals were decoded for this architecture."
             );
         }
-        List<String> boundaryLimitations = noReturnCallLimitations(scan.instructions);
-        for (String limitation : boundaryLimitations) {
+        CallBoundaryObservation calls = callBoundaryObservation(
+            function, scan.instructions, calleeFunctions, true, outgoingReferences);
+        result.add("unresolved_calls", calls.unresolvedCalls());
+        for (String limitation : calls.limitations()) {
             limitations.add(limitation);
         }
         if (decompilation != null && decompilation.getErrorMessage() != null &&
@@ -1583,7 +1594,14 @@ public final class ReaGhidraBridge extends HeadlessScript {
             limitations.add("Ghidra decompiler diagnostic: " + decompilation.getErrorMessage());
         }
         result.add("limitations", limitations);
-        return new FunctionAnalysisObservation(result, boundaryLimitations);
+        monitor.checkCancelled();
+        int missingCallers = 0;
+        for (Reference reference : bodyIncoming) {
+            monitor.checkCancelled();
+            if (unrepresentedCaller(reference, callerFunctions)) missingCallers++;
+        }
+        return new FunctionAnalysisObservation(result, calls.limitations(),
+            callRelationshipCoverage(calls, missingCallers));
     }
 
     private JsonObject nativeValueFlow(DecompileResults decompilation) throws Exception {
@@ -3287,54 +3305,202 @@ public final class ReaGhidraBridge extends HeadlessScript {
         return result;
     }
 
+    private static JsonObject facetAvailability(boolean available, String reason) {
+        JsonObject result = new JsonObject();
+        result.addProperty("available", available);
+        if (!available) result.addProperty("reason", reason);
+        return result;
+    }
+
+    private JsonObject callRelationshipObservation(JsonElement value, CallBoundaryObservation calls)
+            throws Exception {
+        monitor.checkCancelled();
+        JsonObject result = functionObservation(value, calls.limitations());
+        result.add("relationship_coverage", callRelationshipCoverage(calls, null));
+        return result;
+    }
+
+    private static JsonObject callRelationshipCoverage(
+            CallBoundaryObservation calls, Integer missingCallers) {
+        JsonObject coverage = completeResolvedCallCoverage();
+        Integer omitted = calls == null ? null : calls.unrepresentedCalleeCalls();
+        JsonArray directions = new JsonArray();
+        if (missingCallers != null && missingCallers > 0) directions.add("callers");
+        String callerLimitation = missingCallers != null && missingCallers > 0
+            ? "Ghidra's caller inventory omits sources of " + missingCallers +
+                " call reference(s) into this function's body." : null;
+        if ((calls != null && omitted == null) || (calls == null && missingCallers == null)) {
+            coverage.addProperty("status", "unknown");
+            String reason = calls == null ? "No call inventory was examined."
+                : "The callee inventory was not examined alongside decoded call targets.";
+            coverage.addProperty("reason", reason + (callerLimitation == null ? "" : " " + callerLimitation));
+            if (calls == null && missingCallers == null) directions.add("callers");
+            directions.add("callees");
+            coverage.add("limited_directions", directions);
+            return coverage;
+        }
+        JsonArray limitations = new JsonArray();
+        if (callerLimitation != null) limitations.add(callerLimitation);
+        if (omitted != null && omitted > 0) {
+            limitations.add("Ghidra's callee inventory omits targets of " + omitted +
+                " call reference(s) or decoded call(s) without destinations.");
+            directions.add("callees");
+        }
+        if (!limitations.isEmpty()) {
+            coverage.addProperty("status", "partial");
+            coverage.add("limitations", limitations);
+            coverage.add("limited_directions", directions);
+        }
+        return coverage;
+    }
+
+    private static JsonObject completeResolvedCallCoverage() {
+        JsonObject coverage = new JsonObject();
+        coverage.addProperty("status", "complete");
+        JsonArray diagnostics = new JsonArray();
+        diagnostics.add(
+            "Only resolved Ghidra call references are returned; unresolved computed or indirect calls remain unknown, while function classifications distinguish thunks and externals."
+        );
+        coverage.add("diagnostics", diagnostics);
+        return coverage;
+    }
+
+    private boolean unrepresentedCaller(Reference reference, Set<Function> callers) {
+        if (!reference.getReferenceType().isCall()) return false;
+        Function caller = containingFunction(reference.getFromAddress());
+        return caller == null || !callers.contains(caller);
+    }
+
+    private int unrepresentedIncomingCalls(Function function, Set<Function> callers)
+            throws Exception {
+        int[] omitted = { 0 };
+        visitReferences(function, "incoming", reference -> {
+            if (unrepresentedCaller(reference, callers)) omitted[0]++;
+        });
+        return omitted[0];
+    }
+
     private List<String> noReturnCallLimitations(Iterable<Instruction> instructions)
             throws Exception {
         List<String> limitations = new ArrayList<>();
         for (Instruction instruction : instructions) {
             monitor.checkCancelled();
-            if (!instruction.getFlowType().isCall() || !instruction.getFlowType().isTerminal()) {
-                continue;
-            }
-            Address[] destinations = instruction.getFlows();
-            StringBuilder limitation = new StringBuilder();
-            limitation.append("Ghidra Listing reports a terminal call at ")
-                .append(canonicalAddress(instruction.getAddress()));
-            if (destinations.length == 0) {
-                limitation.append(" with no resolved callee; its no-return basis is unknown.");
-            }
-            else {
-                limitation.append(" to ");
-                for (int index = 0; index < destinations.length; index++) {
-                    if (index > 0) limitation.append(", ");
-                    Address destination = destinations[index];
-                    limitation.append(canonicalAddress(destination));
-                    Function target = currentProgram.getFunctionManager().getFunctionAt(destination);
-                    if (target == null) {
-                        limitation.append(" (callee identity unknown)");
-                    }
-                    else {
-                        limitation.append(" ").append(procedureName(target));
-                        limitation.append(" (external=").append(target.isExternal());
-                        limitation.append(", thunk=").append(target.isThunk());
-                        limitation.append(", hasNoReturn=").append(target.hasNoReturn()).append(")");
-                    }
-                }
-                limitation.append("; fallthrough is excluded by Ghidra's flow model.");
-                Function target = destinations.length == 1
-                    ? currentProgram.getFunctionManager().getFunctionAt(destinations[0])
-                    : null;
-                if (target != null && target.hasNoReturn()) {
-                    limitation.append(" This records Ghidra's FunctionManager flag, not an independent verification that the callee cannot return.");
-                }
-                else {
-                    limitation.append(" The reason for the terminal flow is not established by this observation.");
-                }
-            }
-            limitations.add(limitation.toString());
+            String limitation = terminalCallLimitation(instruction);
+            if (limitation != null) limitations.add(limitation);
         }
         return limitations;
     }
 
+    private CallBoundaryObservation callBoundaryObservation(
+            Function function, Iterable<Instruction> instructions, Set<Function> returnedCallees,
+            boolean includeUnresolvedSites, List<Reference> observedReferences)
+            throws Exception {
+        List<String> limitations = new ArrayList<>();
+        CallBoundaryReferences calls = new CallBoundaryReferences(returnedCallees, includeUnresolvedSites);
+        if (observedReferences == null) visitReferences(function, "outgoing", calls::observe);
+        else for (Reference reference : observedReferences) {
+            monitor.checkCancelled();
+            calls.observe(reference);
+        }
+        for (Instruction instruction : instructions) {
+            monitor.checkCancelled();
+            String limitation = terminalCallLimitation(instruction);
+            if (limitation != null) limitations.add(limitation);
+            if (!instruction.getFlowType().isCall()) continue;
+            boolean destination = false;
+            for (Reference reference : instruction.getReferencesFrom()) {
+                if (!reference.getReferenceType().isCall()) continue;
+                destination = true;
+                break;
+            }
+            if (!destination) {
+                calls.unrepresented++;
+                calls.unresolved(instruction.getAddress(),
+                    "Instruction decoder identifies a call but ReferenceManager supplies no call destination");
+            }
+        }
+        return new CallBoundaryObservation(List.copyOf(limitations),
+            returnedCallees == null ? null : calls.unrepresented, calls.unresolvedCalls());
+    }
+
+    private final class CallBoundaryReferences {
+        private final Set<Function> returnedCallees;
+        private final TreeMap<Address, String> unresolved;
+        private int unrepresented;
+
+        CallBoundaryReferences(Set<Function> returnedCallees, boolean includeUnresolvedSites) {
+            this.returnedCallees = returnedCallees;
+            unresolved = includeUnresolvedSites ? new TreeMap<>() : null;
+        }
+
+        void observe(Reference reference) {
+            if (!reference.getReferenceType().isCall()) return;
+            // Reference identity follows the same containing-function owner as referenceEdge.
+            Function target = containingFunction(reference.getToAddress());
+            if (returnedCallees != null && (target == null || !returnedCallees.contains(target)))
+                unrepresented++;
+            if (target == null) unresolved(reference.getFromAddress(),
+                "A call destination has no known containing Ghidra procedure");
+        }
+
+        void unresolved(Address address, String reason) {
+            if (unresolved != null) unresolved.put(address, reason);
+        }
+
+        JsonArray unresolvedCalls() {
+            if (unresolved == null) return null;
+            JsonArray result = new JsonArray();
+            for (var item : unresolved.entrySet()) {
+                JsonObject site = new JsonObject();
+                site.addProperty("address", canonicalAddress(item.getKey()));
+                site.addProperty("reason", item.getValue());
+                result.add(site);
+            }
+            return result;
+        }
+    }
+
+    private String terminalCallLimitation(Instruction instruction) {
+        if (!instruction.getFlowType().isCall() || !instruction.getFlowType().isTerminal())
+            return null;
+        Address[] destinations = instruction.getFlows();
+        StringBuilder limitation = new StringBuilder();
+        limitation.append("Ghidra Listing reports a terminal call at ")
+            .append(canonicalAddress(instruction.getAddress()));
+        if (destinations.length == 0) {
+            limitation.append(" with no resolved callee; its no-return basis is unknown.");
+        }
+        else {
+            limitation.append(" to ");
+            for (int index = 0; index < destinations.length; index++) {
+                if (index > 0) limitation.append(", ");
+                Address destination = destinations[index];
+                limitation.append(canonicalAddress(destination));
+                Function target = currentProgram.getFunctionManager().getFunctionAt(destination);
+                if (target == null) {
+                    limitation.append(" (callee identity unknown)");
+                }
+                else {
+                    limitation.append(" ").append(procedureName(target));
+                    limitation.append(" (external=").append(target.isExternal());
+                    limitation.append(", thunk=").append(target.isThunk());
+                    limitation.append(", hasNoReturn=").append(target.hasNoReturn()).append(")");
+                }
+            }
+            limitation.append("; fallthrough is excluded by Ghidra's flow model.");
+            Function target = destinations.length == 1
+                ? currentProgram.getFunctionManager().getFunctionAt(destinations[0])
+                : null;
+            if (target != null && target.hasNoReturn()) {
+                limitation.append(" This records Ghidra's FunctionManager flag, not an independent verification that the callee cannot return.");
+            }
+            else {
+                limitation.append(" The reason for the terminal flow is not established by this observation.");
+            }
+        }
+        return limitation.toString();
+    }
+
     private static String renderAssembly(List<Instruction> instructions) {
         return String.join("\n", renderAssemblyLines(instructions));
     }
@@ -3358,15 +3524,27 @@ public final class ReaGhidraBridge extends HeadlessScript {
     private List<Reference> collectReferences(
             Function function,
             String direction) throws Exception {
+        TreeMap<String, Reference> observed = new TreeMap<>();
+        visitReferences(function, direction, reference -> addReference(observed, reference));
+        List<Reference> result = new ArrayList<>(observed.values());
+        result.sort(REFERENCE_ORDER);
+        return result;
+    }
+
+    @FunctionalInterface
+    private interface ReferenceVisitor {
+        void accept(Reference reference) throws Exception;
+    }
+
+    private void visitReferences(Function function, String direction, ReferenceVisitor visitor)
+            throws Exception {
         // References can target instruction interiors or originate in embedded
         // data. Use actual body ownership, including an external's exact entry.
-        AddressSet scope = new AddressSet(function.getBody());
-        scope.add(function.getEntryPoint());
+        AddressSet scope = functionObservationScope(function);
         boolean outgoing = direction.equals("outgoing");
         AddressIterator addresses = outgoing
             ? currentProgram.getReferenceManager().getReferenceSourceIterator(scope, true)
             : currentProgram.getReferenceManager().getReferenceDestinationIterator(scope, true);
-        TreeMap<String, Reference> observed = new TreeMap<>();
         while (addresses.hasNext()) {
             monitor.checkCancelled();
             Address address = addresses.next();
@@ -3374,7 +3552,7 @@ public final class ReaGhidraBridge extends HeadlessScript {
                 for (Reference reference : currentProgram.getReferenceManager()
                         .getReferencesFrom(address)) {
                     monitor.checkCancelled();
-                    addReference(observed, reference);
+                    if (!reference.isEntryPointReference()) visitor.accept(reference);
                 }
             }
             else {
@@ -3382,19 +3560,14 @@ public final class ReaGhidraBridge extends HeadlessScript {
                     .getReferencesTo(address);
                 while (iterator.hasNext()) {
                     monitor.checkCancelled();
-                    addReference(observed, iterator.next());
+                    Reference reference = iterator.next();
+                    if (!reference.isEntryPointReference()) visitor.accept(reference);
                 }
             }
         }
-        List<Reference> result = new ArrayList<>(observed.values());
-        result.sort(REFERENCE_ORDER);
-        return result;
     }
 
     private static void addReference(TreeMap<String, Reference> observed, Reference reference) {
-        if (reference.isEntryPointReference()) {
-            return;
-        }
         String key = canonicalAddress(reference.getFromAddress()) + "\u0000" +
             canonicalAddress(reference.getToAddress()) + "\u0000" +
             reference.getReferenceType().getName() + "\u0000" +
@@ -3403,6 +3576,12 @@ public final class ReaGhidraBridge extends HeadlessScript {
         observed.putIfAbsent(key, reference);
     }
 
+    private static AddressSet functionObservationScope(Function function) {
+        AddressSet scope = new AddressSet(function.getBody());
+        scope.add(function.getEntryPoint());
+        return scope;
+    }
+
     private JsonArray referenceEdges(List<Reference> references) {
         JsonArray result = new JsonArray();
         for (Reference reference : references) {
@@ -3556,23 +3735,28 @@ public final class ReaGhidraBridge extends HeadlessScript {
         return result;
     }
 
-    private static JsonArray comments(List<Instruction> instructions) {
+    private JsonArray comments(Function function) throws Exception {
+        Listing listing = currentProgram.getListing();
+        AddressSet scope = functionObservationScope(function);
+        AddressIterator addresses = listing.getCommentAddressIterator(scope, true);
         TreeMap<String, JsonObject> observed = new TreeMap<>();
-        for (Instruction instruction : instructions) {
+        while (addresses.hasNext()) {
+            monitor.checkCancelled();
+            Address address = addresses.next();
             for (CommentType type : CommentType.values()) {
-                String text = instruction.getComment(type);
+                String text = listing.getComment(type, address);
                 if (text == null || text.isEmpty()) {
                     continue;
                 }
                 String kind = type == CommentType.EOL ? "inline" : "comment";
                 JsonObject item = new JsonObject();
-                item.addProperty("address", canonicalAddress(instruction.getAddress()));
+                item.addProperty("address", canonicalAddress(address));
                 item.addProperty("kind", kind);
                 item.addProperty("text", text);
-                String key = canonicalAddress(instruction.getAddress()) + "\u0000" +
+                String key = canonicalAddress(address) + "\u0000" +
                     kind + "\u0000" + type.name() + "\u0000" + text;
                 observed.put(key, item);
-                    }
+            }
         }
         JsonArray result = new JsonArray();
         observed.values().forEach(result::add);
@@ -4508,7 +4692,8 @@ public final class ReaGhidraBridge extends HeadlessScript {
     private record InventoryItem(Address address, String value, JsonObject facts) {}
     private record AddressNameRequest(String inputAddress, Address address, String name) {}
     private record FunctionEntry(Function function, InventoryItem item) {}
-    private record FunctionAnalysisObservation(JsonObject dossier, List<String> limitations) {}
+    private record FunctionAnalysisObservation(JsonObject dossier, List<String> limitations, JsonObject relationshipCoverage) {}
+    private record CallBoundaryObservation(List<String> limitations, Integer unrepresentedCalleeCalls, JsonArray unresolvedCalls) {}
     private record SwiftStringLiteralDecode(JsonArray literals, JsonArray omissions) {}
     private record SwiftLiteralLayout(
         String representation,

docs/client-configuration.md

@@ -265,6 +265,21 @@ The user-level MCP paths follow the editor's VS Code layout. Trae's official
 documentation describes the raw JSON editor without specifying those paths;
 loading this registration in Trae remains unverified.
 
+## WorkBuddy
+
+For [WorkBuddy](https://www.workbuddy.cn/docs/workbuddy/From-Beginner-to-Expert-Guide/Function-Description/MCP-Guide), setup writes `mcpServers.rea` into the
+global `~/.workbuddy/mcp.json` (a standard `mcpServers` JSON file at the user
+home root on every platform). Entries carry `command`, `args`, and `env`;
+stdio is the default transport. WorkBuddy discovers personal skills from
+`~/.workbuddy/skills` (`%userprofile%\.workbuddy\skills` on Windows), so
+setup installs its skill copy there.
+
+The global MCP path is a plain JSON file; setup preserves every other server
+and top-level key when it upserts `rea`. WorkBuddy also reads a project-level
+`<project>/.workbuddy/mcp.json`, which setup does not touch: it registers the
+user-level file only. Loading this registration and real REA tool calls
+through WorkBuddy are verified.
+
 ## ZCode
 
 For [ZCode](https://zcode.z.ai/en/docs/mcp-services), setup registers `rea` in the nested `mcp.servers` table of the
@@ -279,7 +294,11 @@ the first native server into an empty table, it copies the fallback's
 `mcpServers` entries into the native table so they keep loading, and leaves
 the fallback file untouched. Existing REA environment overrides are preserved
 when refreshing its command. A malformed or unreadable fallback file fails setup instead of
-being silently suppressed; repair or remove it and rerun. ZCode disables a
+being silently suppressed; repair or remove it and rerun. Uninstall removes an
+REA-owned `rea` entry from both the native table and the fallback, backing up
+each changed file, so an emptied native table cannot load a leftover fallback
+registration; other fallback servers, settings and a foreign `rea` entry are
+kept. ZCode disables a
 server with `enable: false` on its entry; doctor reports such a registration
 as stale, and rerunning setup removes the flag to repair it. Native configuration
 uses strict JSON; setup refuses comments, trailing commas and a BOM rather than

docs/installation.md

@@ -129,6 +129,150 @@ Setup pins package-runner MCP registrations to the exact installed REA version,
 installs the matching skill and on-demand references in the same plan, and adds
 `startup_timeout_sec = 30` for Codex and Grok Build.
 
+## Limit REA to one project or agent profile
+
+Setup registers REA for the whole client. For Claude Code it writes
+`mcpServers.rea` in `~/.claude.json` and installs the bundled skill under
+`~/.claude/skills`, so every project that Claude Code opens can call REA. To
+offer REA's tools only where they're wanted, use one of the routes below.
+
+Both routes control which sessions discover REA's MCP server and skill. They
+leave shell commands, filesystem access and network access available. An agent
+under the same OS account can run `rea` from `PATH` or `npx` and read other
+profiles and REA output. For clean-room separation, use an implementation
+environment with filesystem and network restrictions that prevent reading or
+fetching REA, the target and analysis output, including through shared
+installations and package registries. A separate account or container must
+enforce those restrictions.
+
+For Claude Code, check existing default-profile state before choosing either
+route. Setup is additive: a previous user-level REA registration and personal
+skill remain active in other projects. Back up the default configuration and
+REA skill first, then, with `CLAUDE_CONFIG_DIR` unset, remove the REA user
+registration with `claude mcp remove --scope user rea` and remove the known
+REA-installed `~/.claude/skills/reverse-engineer-anything` directory. Preserve
+unrelated registrations and skills. `rea uninstall` applies to other clients
+as well, so it is broader than this Claude-only migration.
+
+**A separate Claude Code profile.** Claude Code keeps settings, skills and session
+history under `CLAUDE_CONFIG_DIR`. Setup follows the same
+variable: it writes the registration to `$CLAUDE_CONFIG_DIR/.claude.json` and
+the skill to `$CLAUDE_CONFIG_DIR/skills`.
+
+```bash
+CLAUDE_CONFIG_DIR=~/.claude-rea npx rea-agents setup --client claude_code
+CLAUDE_CONFIG_DIR=~/.claude-rea claude
+```
+
+A new profile may need authentication. Console sign-ins without an API key are
+stored outside `CLAUDE_CONFIG_DIR`; see
+[Claude Code authentication](https://code.claude.com/docs/en/authentication#log-in-with-multiple-accounts).
+Sessions started without the variable use the default profile's registration,
+skill and history.
+
+Inline assignments apply only to that command. Keep the same prefix for every
+profile check, setup rerun, update, or removal; bare commands use the current
+environment and can otherwise inspect or recreate default-profile state:
+
+```bash
+CLAUDE_CONFIG_DIR=~/.claude-rea claude mcp list
+CLAUDE_CONFIG_DIR=~/.claude-rea npx rea-agents doctor --client claude_code --skill --json
+CLAUDE_CONFIG_DIR=~/.claude-rea npx -y rea-agents@latest setup --client claude_code --dry-run
+```
+
+After reviewing an update plan, rerun that same prefixed setup command without
+`--dry-run` and approve its exact changes. Profile removal likewise needs the
+prefix on `claude mcp remove --scope user rea` and any `rea uninstall` command;
+keep the broader client scope of uninstall in mind. Restart the selected
+profile after changing its pinned registration.
+
+`claude mcp remove` removes only the registration. To remove REA from this
+profile without running the broader uninstall flow, first back up the profile's
+REA-managed skill directory, then remove
+`$CLAUDE_CONFIG_DIR/skills/reverse-engineer-anything` as well. Keep other skills
+in the profile intact.
+
+The commands above use POSIX shell assignment syntax. In native Windows
+PowerShell, select the profile for the whole setup/launch/check session and
+restore the previous selection afterward:
+
+```powershell
+$previousClaudeConfigDir = $env:CLAUDE_CONFIG_DIR
+try {
+  $env:CLAUDE_CONFIG_DIR = Join-Path $HOME ".claude-rea"
+  npx rea-agents setup --client claude_code
+  claude mcp list
+  npx rea-agents doctor --client claude_code --skill --json
+  npx -y rea-agents@latest setup --client claude_code --dry-run
+  # After reviewing the plan, repeat setup without --dry-run and approve it.
+  claude
+  # Profile removal, when intended, also belongs inside this selected scope:
+  # claude mcp remove --scope user rea
+} finally {
+  if ($null -eq $previousClaudeConfigDir) {
+    Remove-Item Env:CLAUDE_CONFIG_DIR -ErrorAction SilentlyContinue
+  } else {
+    $env:CLAUDE_CONFIG_DIR = $previousClaudeConfigDir
+  }
+}
+```
+
+Use PowerShell for these Windows examples rather than pasting POSIX assignments
+into cmd.exe. Keep profile updates, readiness checks and removal inside the
+same selected environment; the `finally` block restores the previous profile
+or unsets the variable when it was absent.
+
+**One project.** Install without configuring Claude Code: use the curl
+installer's `--no-setup`, or run setup only for other clients. Then register
+REA from the project directory at Claude Code's local scope.
+
+This route uses the default Claude profile. Keep `CLAUDE_CONFIG_DIR` unset for
+the entire local lifecycle: registration, backup, listing, version replacement
+and removal. In POSIX shells run `unset CLAUDE_CONFIG_DIR`; in PowerShell run
+`Remove-Item Env:CLAUDE_CONFIG_DIR -ErrorAction SilentlyContinue` before these
+commands. Record an existing selection first if you intend to restore it after
+finishing. The configuration path below is the default profile's
+`~/.claude.json`; a different active profile uses its own config root instead.
+
+Register with the variable unset:
+
+<!-- x-release-please-start-version -->
+
+```bash
+claude mcp add --scope local rea -- npx -y rea-agents@6.4.0 mcp
+```
+
+On native Windows, use the same project directory and wrap the package-runner
+shim so the stdio client can launch it:
+
+```powershell
+claude mcp add --scope local rea -- cmd.exe /d /c npx -y rea-agents@6.4.0 mcp
+```
+
+<!-- x-release-please-end -->
+
+Local scope stores the entry under that directory's path in `~/.claude.json`,
+so other projects don't load it. This route doesn't install the bundled skill.
+Avoid `--scope project`, which writes `.mcp.json` into the repository where it
+can be committed or copied. `rea doctor` and `rea uninstall` read only the
+user-level entry, so they don't report or remove a local-scope registration;
+remove it with `claude mcp remove --scope local rea` from the same directory.
+`rea update` doesn't refresh it either, so it stays on the version it names.
+To move it to a newer release, first back up the project entry in
+`~/.claude.json` and record its environment and other metadata. In particular,
+preserve caller-selected overrides such as `REA_MCP_INPUT_SCHEMA_PROFILE` and
+`REA_MCP_MAX_RESPONSE_BYTES`. Run `claude mcp remove --scope local rea` from the
+same directory, then recreate it with the platform-appropriate command above
+and the new version. Reapply every recorded environment value with Claude
+Code's `mcp add --env NAME=value` options and restore any other retained entry
+metadata before restarting the project session. Removal and re-addition do not
+preserve these values automatically. Running setup for Claude Code instead
+would add a user-level entry for every project.
+
+Check the separate profile with the prefixed `claude mcp list` above and compare
+with the default profile with `CLAUDE_CONFIG_DIR` unset. For local scope, run
+`claude mcp list` from the selected project and again from another project.
+
 ## Check readiness for your task
 
 Run `rea doctor` when you need diagnosis. It reads host prerequisites and agent
@@ -288,11 +432,12 @@ hosted connector; see [its configuration](client-configuration.md#other-client-s
 | Qoder              | `qoder`          |
 | Factory Droid      | `droid`          |
 | Trae               | `trae`           |
+| WorkBuddy          | `workbuddy`      |
 | ZCode              | `zcode`          |
 | DeepSeek Harness   | `dsh`            |
 
-`dsh` and `kimi` require a release containing them. The registry check above does
-not cover them.
+`dsh`, `kimi`, and `workbuddy` require a release containing them. The registry
+check above does not cover them.
 
 See [client configuration and troubleshooting](client-configuration.md) for
 configuration paths, profiles, trust policies, and schema-limit workarounds.
@@ -493,7 +638,13 @@ copying license secrets into logs, or killing unrelated Hopper processes.
 REA connects to an existing Ghidra installation on Linux x64/arm64, macOS x64/arm64,
 or experimental Windows x64 P0.
 It accepts Ghidra 12.1.x and the 64-bit full JDK declared by that installation's
-`application.java.min` and `application.java.max`. Current 12.1 releases require
+`application.java.min` and `application.java.max`. The JDK's reported platform must also
+map to the same native decompiler directory as the host: a JDK running under
+emulation (for example x86_64 under Rosetta on Apple silicon) or reporting a
+non-host `os.name` fails the doctor
+even when it is an otherwise accepted 64-bit full JDK. Select a matching JDK
+through `JAVA_HOME`; adding another decompiler in the JVM-selected directory
+does not satisfy this host-validated admission rule. Current 12.1 releases require
 JDK 21 or newer and set no maximum. The bridge is verified with Ghidra 12.1.4
 and JDK 21. Each installation must include the native decompiler for the host
 architecture in `Ghidra/Features/Decompiler/os/<platform>/` or the corresponding
@@ -556,6 +707,11 @@ registrations. See [Windows Ghidra P0](windows-ghidra-p0.md) for provider diagno
 Doctor validates the platform, architecture, Ghidra 12.1.x application version,
 `support/analyzeHeadless` or `support/analyzeHeadless.bat`, the installation's
 Java major range, 64-bit JDK bitness, and the presence of `javac`/`javac.exe`.
+It also checks that the reported JVM `os.arch` and `os.name` map to the same native decompiler
+directory validated for the host; unrecognized reported architectures or a
+non-host operating system are refused. LaunchSupport overrides of either
+property, including through helper-environment JVM option variables, are
+rejected at launch.
 When Java is found through `PATH`, setup records its observed JDK home so GUI
 MCP clients do not depend on an incidental shell path. Setup shows every exact
 environment entry in its plan, writes only after approval, and never downloads,

docs/readme/README_ko.md

@@ -20,7 +20,7 @@
 
 **[웹사이트](https://rea.tools/ko/) · [가이드](https://rea.tools/ko/guides/) · [사례](https://rea.tools/ko/showcase/)**
 
-[빠른 시작](#빠른-시작) · [REA의 작동 방식](#rea의-작동-방식) · [분석할 수 있는 대상](#분석할-수-있는-대상) · [사례](#사례) · [자주 묻는 질문](#자주-묻는-질문) · [GNU objdump 및 Rizin 도구](../reverse-engineering-tools.md) · [문서](#문서)
+[빠른 시작](#빠른-시작) · [REA의 작동 방식](#rea의-작동-방식) · [분석할 수 있는 대상](#분석할-수-있는-대상) · [사례](#사례) · [자주 묻는 질문](#자주-묻는-질문) · [문서](#문서)
 
 <code>npx rea-agents setup</code>
 
@@ -56,7 +56,7 @@
 
 REA는 에이전트를 분석 도구에 연결해 네이티브 바이너리, JavaScript와 Electron 앱, .NET 어셈블리, 웹사이트를 검사할 수 있게 합니다. 터미널에서도 같은 도구를 사용할 수 있습니다. 분석은 로컬에서 실행되며, 결과에는 각 결론의 근거와 한계가 포함됩니다.
 
-설정 과정은 에이전트에 REA를 등록하고 해당 버전에 맞는 워크플로 지침을 설치합니다. 네이티브 분석에는 기존 Hopper 또는 Ghidra 설치를 사용할 수 있습니다. 승인하면 설정 과정에서 Hopper를 설치할 수도 있습니다. 정적 JavaScript 분석에는 두 엔진 모두 필요하지 않습니다.
+설정 과정은 에이전트에 REA를 등록하고 해당 버전에 맞는 워크플로 지침을 설치합니다. 네이티브 분석에는 기존 Hopper, Ghidra 또는 IDA 설치를 사용할 수 있습니다. 승인하면 설정 과정에서 Hopper를 설치할 수도 있습니다. 정적 JavaScript 분석에는 네이티브 분석 엔진이 필요하지 않습니다.
 
 > **[REA 웹사이트](https://rea.tools/ko/)**에서 설정 방법, 그림으로 설명한 가이드, 실제 사례를 확인하세요.
 
@@ -105,12 +105,14 @@ rea --help
 
 REA는 빠르게 바뀌며 새 릴리스에는 버그 수정이 자주 포함됩니다. 설치된 버전을 최신으로 유지하세요.
 
-npm으로 설치한 CLI에서는 다음 명령을 사용합니다.
+`npm install --global` 또는 `bun add --global`로 설치한 CLI에서는 다음 명령을 사용합니다.
 
 ```bash
 rea update
 ```
 
+Bun 전역 업데이트에는 Bun 1.2.17 이상이 필요합니다. 이전 버전의 Bun을 사용한다면 `rea update`를 실행하기 전에 Bun을 직접 업그레이드하세요.
+
 에이전트 등록과 스킬을 갱신하려면 업데이트 과정에서 출력된 설정 명령을 실행하세요.
 
 `npx`를 사용한다면 다음 명령으로 에이전트 설정을 갱신하세요.
@@ -119,7 +121,7 @@ rea update
 npx rea-agents@latest setup
 ```
 
-설정 변경 사항을 검토하고 에이전트를 다시 시작하세요. 일회성 CLI 작업에는 `npx rea-agents@latest` 뒤에 필요한 명령을 붙여 실행하세요.
+설정 변경 사항을 검토하고 에이전트를 다시 시작하세요. 일회성 CLI 작업에는 `npx rea-agents@latest` 뒤에 필요한 명령을 붙여 실행하세요. Bun을 사용한다면 위 명령의 `npx rea-agents@latest`를 `bunx rea-agents@latest`로 바꿔 실행하세요.
 
 ## REA의 작동 방식
 
@@ -139,14 +141,16 @@ REA에는 Node.js 22.x(>=22.19), 24.x(>=24.11) 또는 26+와 npm이 필요합니
 | --------------------- | ----------------------------------------------------------------------------- | --------------------------------------------------------------------------------------------------------------------------------- |
 | 네이티브 바이너리     | 의사 코드, 어셈블리, 문자열, 심볼, 호출, 참조                                 | Hopper, Ghidra 또는 IDA; [네이티브 분석](https://rea.tools/ko/guides/native/)                                                     |
 | 오프라인 ELF 레이아웃 | 섹션, 세그먼트, 원본 심볼/재배치 정보, 정적 분석으로 얻은 보안 완화 기법 후보 | Linux x64에서 호출자가 제공하는 pwntools; [바이너리 진단](../binary-diagnostics.md)                                               |
+| Go 바이너리           | 내장된 컴파일러 버전, 모듈, `replace` 지시어, 빌드 설정                       | REA 내장 ELF/PE/thin Mach-O 정적 검사; Go 설치 불필요                                                                             |
+| Rust 바이너리         | cargo-auditable이 내장한 크레이트 이름, 버전, 소스, 의존성 관계               | REA 내장 ELF/PE/thin Mach-O 정적 검사; [Rust 바이너리](../rust-binaries.md)                                                       |
+| WASM 아티팩트         | 유효성 검사, 섹션, import/export의 정확한 WAT 형식, 디코딩된 WAT              | 호출자 제공 WABT 1.0.42; `inspect_wasm_artifact`                                                                                  |
 | EVM 바이트코드        | 디스패치 선택자, 바이트 오프셋, 추론한 인자와 상태 변경 가능 여부             | Linux x64의 로컬 원시 바이트/16진수 입력 파일; [오프라인 EVM 가이드](../evm-bytecode.md)                                          |
-| Rust binaries         | Embedded cargo-auditable dependency list                                      | [Rust binaries](../rust-binaries.md)                                                                                              |
+| SQLite 데이터베이스   | 테이블, 열, 인덱스, 뷰, 트리거, 선택한 일반 테이블의 행                       | 로컬 데이터베이스/WAL 스냅샷; Node.js 24.15 이상의 24.x 또는 26 이상(네이티브 SQLite 한도 적용)                                   |
 | 기록된 Linux 크래시   | 원시 note 레코드, 기록된 모든 스레드의 레지스터/시그널, 선택적 매핑 후보      | Linux x64에서 호출자가 제공하는 pwntools; GDB/pwndbg는 선택 사항; [기록된 크래시](../recorded-crashes.md)                         |
 | JavaScript / Electron | 모듈, 임포트, 소스 맵, 라우트, IPC, 네이티브 애드온 관계                      | Node.js와 npm; [애플리케이션 분석](https://rea.tools/ko/guides/javascript/)                                                       |
 | 웹사이트              | 페이지 구조, 스크립트, 네트워크 관찰 결과, 요청한 스크린샷                    | Chrome 계열 브라우저; [브라우저 분석](https://rea.tools/ko/guides/browser/)                                                       |
-| 저장된 네트워크 캡처  | 요청, 응답, 접근 가능한 페이로드, 소스 위치                                   | HAR; mitmproxy 네이티브 캡처에는 Linux의 mitmdump; [캡처 가이드](../web-network-captures.md)                                      |
-| 패킷 캡처             | 엔드포인트, DNS, TLS SNI, 프로토콜 분포, HTTP 요청                            | 호출자 제공 tshark 및 capinfos; [pcap 가이드](../pcap-analysis.md)                                                                |
-| .NET 어셈블리         | 메타데이터, CIL 명령, 선언된 네이티브 의존성, 빌드 비교                       | 정적 검사; [관리 코드 가이드](../managed-code-analysis.md)                                                                        |
+| 저장된 네트워크 캡처  | 요청, 응답, 접근 가능한 페이로드, 소스 위치                                   | HAR 또는 Fiddler Everywhere SAZ; mitmproxy 네이티브 캡처에는 Linux의 mitmdump; [캡처 가이드](../web-network-captures.md)          |
+| .NET 어셈블리         | 메타데이터, CIL 명령, 선언된 네이티브 의존성, 빌드 비교                       | 별도 도구 불필요(정적 검사만); [관리 코드 가이드](../managed-code-analysis.md)                                                    |
 | Android APK           | 매니페스트 선언, 클래스, 디컴파일된 메서드, 참조                              | Linux/macOS/Windows x64의 헤드리스 JADX와 전체 JDK; [Android 가이드](../android-analysis.md)                                      |
 | Android 기기          | 기기, 패키지, 프로세스, 로그, 덤프, 화면 캡처, APK/파일 전송                  | 호출자 제공 adb(에뮬레이터 또는 실제 기기); [ADB 가이드](../adb-device-analysis.md)                                               |
 | JEB 프로젝트          | 엔진 기반 프로젝트 유닛, 아티팩트 해시, 타입/메서드 의사코드                  | 호출자가 시작하고 MCP를 제공하는 JEB 클라이언트(REA_JEB_MCP_URL로 선택); [JEB 가이드](../jeb-analysis.md)                         |
@@ -154,15 +158,18 @@ REA에는 Node.js 22.x(>=22.19), 24.x(>=24.11) 또는 26+와 npm이 필요합니
 | Flutter 앱            | Dart 스냅샷 해시, ABI별 라이브러리 해시, 엔진 빌드 출처                       | 없음 (정적 APK 파싱); [Flutter 가이드](../flutter-analysis.md)                                                                    |
 | 펌웨어                | 영역, 추출 결과, 네이티브 분석으로 전달할 정보                                | Linux의 Binwalk / Unblob; [펌웨어 가이드](../firmware-analysis.md)                                                                |
 | 기록된 패킷           | 선택 필드, 반복 값, 필터 및 디코딩 규칙                                       | Linux: TShark 4.x + prlimit; [캡처 가이드](../packet-captures.md)                                                                 |
+| 패킷 요약             | 엔드포인트, DNS, TLS SNI, 프로토콜 분포, HTTP 요청                            | 호출자 제공 tshark 및 capinfos(Linux에서 검증됨); [pcap 가이드](../pcap-analysis.md)                                              |
 | 기록된 논리 신호      | 디코더 주석, 샘플 범위, 진단 정보                                             | Linux: sigrok-cli 0.7.2 + prlimit; [신호 기록 가이드](../signal-recordings.md)                                                    |
 | 패키지 및 리소스      | 파일 목록, 다이제스트, plist, Apple 번들 구조, 추출한 리소스                  | [아티팩트 및 JavaScript 가이드](../javascript-artifact-reconstruction.md), [Apple 애플리케이션](../apple-application-analysis.md) |
 | 프로세스 동작         | 터미널 출력, 상호작용, 종료 및 파일 시스템 관찰 결과, 실행 비교               | 네이티브 PTY를 지원하는 Linux/macOS; [프로세스 캡처](../process-capture.md)                                                       |
 
 정적 JavaScript 및 .NET 검사는 제공된 파일을 읽으며 애플리케이션을 실행하지 않습니다. 런타임 캡처는 사용자의 권한으로 선택한 대상을 실행하거나 대상과 상호작용합니다. 각 런타임 가이드에서 그 영향을 설명합니다.
 
+오프라인 네이티브 바이너리 검사에는 호출자가 제공하는 GNU objdump와 Rizin도 사용할 수 있습니다. 제공자 설정, CLI 명령, Evidence의 한계는 [리버스 엔지니어링 도구 가이드](../reverse-engineering-tools.md)를 참고하세요. REA는 objdump와 Rizin을 설치하거나 업데이트하지 않습니다.
+
 <a id="choosing-a-deep-analysis-provider"></a>
 
-지원하는 네이티브 형식과 호스트는 제공자마다 다릅니다. [Hopper 및 Ghidra 설정](../installation.md#hopper), [IDA 가이드](../ida-provider.md), [실험적 Windows Ghidra 지원](../windows-ghidra-p0.md)을 참고하세요. Ghidra는 [16비트 DOS 분석](../ghidra-dos.md)도 지원합니다. 제공자 선택은 [CLI 가이드](../cli.md#choose-a-provider)를 참고하세요. 최신 npm 릴리스 이후 추가된 기능은 [릴리스에서의 사용 가능 여부](../installation.md#released-package-and-main)를 확인하세요.
+지원하는 네이티브 형식과 호스트는 제공자마다 다릅니다. [Hopper 및 Ghidra 설정](../installation.md#hopper), [IDA 가이드](../ida-provider.md)(선택 사항인 네이티브 MCP 브리지 포함), [실험적 Windows Ghidra 지원](../windows-ghidra-p0.md)을 참고하세요. Ghidra는 [16비트 DOS 분석](../ghidra-dos.md)도 지원합니다. 큰 바이너리를 분석할 때는 `REA_GHIDRA_STARTUP_TIMEOUT_MS` 또는 `REA_HOPPER_STARTUP_TIMEOUT_MS`로 제공자의 시작 제한 시간을 늘리세요. 제공자 선택은 [CLI 가이드](../cli.md#choose-a-provider)를 참고하세요. 최신 npm 릴리스 이후 추가된 기능은 [릴리스에서의 사용 가능 여부](../installation.md#released-package-and-main)를 확인하세요.
 
 ## 사례
 
@@ -209,7 +216,7 @@ REA로 흥미로운 대상을 분석했다면 알려 주세요. [issue](https://
 <details>
 <summary><strong>Hopper를 먼저 실행해야 하나요?</strong></summary>
 
-REA는 작업에 필요할 때 Hopper를 실행합니다. macOS에서는 처음 실행할 때 데모 모드를 선택하거나 라이선스를 활성화하라는 대화 상자가 나타날 수 있습니다. [Hopper 실행 및 문제 해결](../installation.md#launcher-paths-and-troubleshooting)을 참고하세요.
+REA는 작업에 필요할 때 Hopper를 실행합니다. macOS에서는 처음 실행할 때 데모 모드를 선택하거나 라이선스를 활성화하라는 대화 상자가 나타날 수 있습니다. 첫 CLI/MCP 작업이나 무인 작업을 실행하기 전에 같은 사용자 세션에서 이 대화 상자를 완료하세요. 필요하면 Hopper를 직접 여세요. [Hopper 실행 및 문제 해결](../installation.md#launcher-paths-and-troubleshooting)을 참고하세요.
 
 </details>
 
@@ -239,7 +246,7 @@ REA는 대상을 로컬에서 분석합니다. 에이전트는 도구 결과를
 
 먼저 업데이트하세요. 최근 릴리스에서 이미 수정되었을 수 있습니다.
 
-npm으로 설치한 CLI에서는 다음 명령을 사용합니다.
+`npm install --global` 또는 `bun add --global`로 설치한 CLI에서는 다음 명령을 사용합니다.
 
 ```bash
 rea update
@@ -286,11 +293,9 @@ REA를 사용하고, 버그를 보고하고, 기능을 요청하고, 빌드를
 
 책임 있는 사용에 관한 안내는 [DISCLAIMER.md](../../DISCLAIMER.md)를 참고하세요.
 
-REA는 법을 준수하는 연구, 교육, 상호운용성 확보, 소프트웨어 보존, 그리고 본인이 소유하거나 조사 권한을 가진 소프트웨어의 분석을 위한 도구입니다.
+불법적이거나 허가되지 않은 사용에 대한 프로젝트의 입장은 모든 REA 버전, 배포 채널, 플랫폼에 적용되며, 각 사본에는 해당 라이선스가 그대로 유지됩니다.
 
-The project's position on illegal or unauthorized use covers all REA
-versions, distribution channels, and platforms; each copy retains its
-applicable licenses.
+REA는 법을 준수하는 연구, 교육, 상호운용성 확보, 소프트웨어 보존, 그리고 본인이 소유하거나 조사 권한을 가진 소프트웨어의 분석을 위한 도구입니다.
 
 ## 기여
 
@@ -302,14 +307,6 @@ REA에 도움을 보태 주세요! [issue를 등록](https://github.com/morluto/
 
 [MIT](../../LICENSE)
 
-REA-authored code is licensed under MIT. Third-party material retains its own
-licenses and copyright notices; see [Third-party notices](../../THIRD_PARTY_NOTICES.md)
-for the dependency inventory, preserved license texts, and external-tool terms.
+REA가 작성한 코드는 MIT 라이선스를 따릅니다. 제3자 자료에는 각자의 라이선스와 저작권 고지가 그대로 유지됩니다. 의존성 목록, 보존된 라이선스 원문, 외부 도구 약관은 [제3자 고지](../../THIRD_PARTY_NOTICES.md)를 참고하세요.
 
-**You must legally obtain and be authorized to use commercial tools**, including
-IDA Pro / Hex-Rays decompilers, Hopper, and JEB, under their applicable licenses.
-REA grants no tool license, key, or activation entitlement. Trials and demos
-remain subject to vendor terms, including user, feature, automation, and output
-sharing restrictions. Cracked copies, stolen keys, unauthorized key sharing,
-and bypassing license restrictions are not authorized. This guidance does not
-amend MIT or third-party licenses.
+IDA Pro / Hex-Rays 디컴파일러, Hopper, JEB 등 상용 도구는 해당 라이선스에 따라 **합법적으로 취득하고 사용 권한을 갖춰야 합니다.** REA는 어떤 도구의 라이선스, 키, 활성화 권한도 부여하지 않습니다. 체험판과 데모는 사용자, 기능, 자동화, 출력 공유 제한을 포함한 공급업체 약관을 따릅니다. 크랙 버전, 도난 키, 무단 키 공유, 라이선스 제한 우회는 허용되지 않습니다. 이 안내는 MIT 라이선스나 제3자 라이선스를 변경하지 않습니다.

scripts/lib/native-value-e2e.mjs

@@ -215,6 +215,27 @@ async function verifyNativeValueAdapters(
     const functionEvidence = parseEvidence(analyzed.structuredContent);
     assert.equal(functionEvidence.operation, "analyze_function");
     assert.equal(functionEvidence.provider.id, "ghidra");
+    assert.deepEqual(
+      functionEvidence.normalized_result.facet_availability,
+      Object.fromEntries(
+        [
+          "pseudocode",
+          "assembly",
+          "comments",
+          "callers",
+          "callees",
+          "references",
+          "strings_names",
+          "cfg",
+        ].map((facet) => [facet, { available: true }]),
+      ),
+    );
+    assert.equal(functionEvidence.relationship_coverage?.status, "complete");
+    assert.ok(
+      functionEvidence.relationship_coverage.diagnostics.some((diagnostic) =>
+        diagnostic.includes("indirect calls remain unknown"),
+      ),
+    );
     const functionProfile = analysisProfileSchema.parse(
       functionEvidence.analysis_profile,
     );
@@ -247,6 +268,7 @@ async function verifyNativeValueAdapters(
     assert.ok(
       comparisonEvidence.evidence_links.includes(functionEvidence.evidence_id),
     );
+    await verifyUnresolvedCallEvidence(client);
     const bundle = await client.callTool({
       name: "get_evidence_bundle",
       arguments: {},
@@ -307,3 +329,63 @@ async function verifyNativeValueAdapters(
     unknowns: cliGraph.unknowns.length,
   };
 }
+
+async function verifyUnresolvedCallEvidence(client) {
+  const inventory = await client.callTool({
+    name: "list_procedures",
+    arguments: {},
+  });
+  assert.notEqual(inventory.isError, true, JSON.stringify(inventory));
+  const procedures = parseEvidence(
+    inventory.structuredContent,
+  ).normalized_result;
+  const indirect = procedures.find((item) =>
+    item.value.endsWith("rea_ghidra_inventory_indirect"),
+  );
+  const leaf = procedures.find((item) =>
+    item.value.endsWith("rea_ghidra_inventory_leaf"),
+  );
+  assert.ok(
+    indirect && leaf,
+    "Source fixture lacks the unresolved callback and its possible target",
+  );
+  const analyzed = await client.callTool(
+    { name: "analyze_function", arguments: { procedure: indirect.address } },
+    { timeout: 180000 },
+  );
+  assert.notEqual(analyzed.isError, true, JSON.stringify(analyzed));
+  const evidence = parseEvidence(analyzed.structuredContent);
+  assert.equal(evidence.relationship_coverage?.status, "partial");
+  assert.ok(evidence.normalized_result.unresolved_calls.length > 0);
+  const traced = await client.callTool(
+    {
+      name: "trace_call_path",
+      arguments: {
+        start: indirect.address,
+        goal: leaf.address,
+        direction: "forward",
+      },
+    },
+    { timeout: 180000 },
+  );
+  assert.notEqual(traced.isError, true, JSON.stringify(traced));
+  const trace = parseEvidence(traced.structuredContent).normalized_result;
+  assert.equal(trace.goal_status, "unknown");
+  assert.equal(trace.truncated, true);
+  assert.ok(trace.residual_unknowns.length > 0);
+  const compared = await client.callTool(
+    {
+      name: "compare_functions",
+      arguments: {
+        left: analyzed.structuredContent,
+        right: analyzed.structuredContent,
+      },
+    },
+    { timeout: 180000 },
+  );
+  assert.notEqual(compared.isError, true, JSON.stringify(compared));
+  assert.equal(
+    parseEvidence(compared.structuredContent).normalized_result.status,
+    "unknown",
+  );
+}

scripts/lib/real-ghidra-boundaries.mjs

@@ -136,7 +136,7 @@ export async function verifyGhidraBoundaries(
   assert.deepEqual(externalDossier.callees, []);
   assert.deepEqual(externalDossier.facet_availability.pseudocode, {
     available: false,
-    reason: "Ghidra did not supply pseudocode.",
+    reason: "Ghidra does not decompile external functions.",
   });
   for (const facet of [
     "assembly",

scripts/verify-windows-native-inspection.mjs

@@ -1,11 +1,12 @@
 import assert from "node:assert/strict";
-import { execFileSync } from "node:child_process";
+import { spawnSync } from "node:child_process";
 import {
+  access,
   copyFile,
   mkdir,
   mkdtemp,
+  readFile,
   readdir,
-  rmdir,
   rm,
   stat,
   symlink,
@@ -54,7 +55,7 @@ try {
     join(workspace, "dist", "windows", "WindowsNativeLoader.js"),
   ).href;
   const source = `import assert from 'node:assert/strict';
-import {existsSync,mkdirSync,readdirSync,renameSync,statSync} from 'node:fs';
+import {existsSync,mkdirSync,readFileSync,readdirSync,renameSync,statSync,writeFileSync} from 'node:fs';
 import {join} from 'node:path';
 import {systemWindowsNativeAuthority} from ${JSON.stringify(loader)};
 const temp=process.env.TEMP;
@@ -64,46 +65,61 @@ assert.equal(first.retryable,true);
 assert.match(first.reason,/Delete owned object by handle failed.*Win32 5/s);
 const [name,...extra]=readdirSync(temp);assert.ok(name);assert.equal(extra.length,0);
 const path=join(temp,name);const identity=statSync(path,{bigint:true});
-// Ownership follows the retained NTFS handle even when the directory moves.
-// A replacement at its old pathname must remain caller-owned.
-const moved=path+'-renamed';renameSync(path,moved);
-assert.equal(statSync(moved,{bigint:true}).ino,identity.ino);
+// Delete sharing permits rename; ownership follows the retained NTFS handle.
+writeFileSync(join(path,'owned-child.txt'),'owned child');
+const renamed=path+'-renamed';renameSync(path,renamed);
+const moved=statSync(renamed,{bigint:true});
+assert.equal(moved.dev,identity.dev);assert.equal(moved.ino,identity.ino);
 mkdirSync(path);const replacement=statSync(path,{bigint:true});
 assert.notEqual(replacement.ino,identity.ino);
+const sentinel=join(path,'unrelated.txt');writeFileSync(sentinel,'unrelated replacement');
 if(process.argv[2]!=='teardown'){
  const second=systemWindowsNativeAuthority();assert.equal(second.available,true);
- assert.equal(existsSync(moved),false);
+ assert.equal(existsSync(renamed),false);
  assert.deepEqual(readdirSync(temp),[name]);
+ assert.equal(readFileSync(sentinel,'utf8'),'unrelated replacement');
  assert.equal(statSync(path,{bigint:true}).ino,replacement.ino);
  assert.equal(systemWindowsNativeAuthority(),second);
 }
-console.log(JSON.stringify({mode:process.argv[2],firstFailed:true,retainedOwner:true,inode:identity.ino.toString(),replacementName:name,replacementInode:replacement.ino.toString()}));
+console.log(JSON.stringify({mode:process.argv[2],firstFailed:true,retainedOwner:true,name,renamed,device:identity.dev.toString(),inode:identity.ino.toString(),replacementInode:replacement.ino.toString()}));
 `;
   const fixture = join(workspace, "probe.mjs");
   await writeFile(fixture, source);
   for (const mode of ["retry", "teardown"]) {
     const temp = join(workspace, mode);
     await mkdir(temp);
-    const observed = JSON.parse(
-      execFileSync(process.execPath, [fixture, mode], {
-        encoding: "utf8",
-        timeout: 20_000,
-        windowsHide: true,
-        env: { ...process.env, TEMP: temp, TMP: temp },
-      }),
-    );
-    assert.equal(observed.retainedOwner, true);
-    assert.deepEqual(await readdir(temp), [observed.replacementName]);
-    const replacement = join(temp, observed.replacementName);
+    const child = spawnSync(process.execPath, [fixture, mode], {
+      encoding: "utf8",
+      timeout: 20_000,
+      windowsHide: true,
+      env: { ...process.env, TEMP: temp, TMP: temp },
+    });
+    if (child.error !== undefined) throw child.error;
+    assert.equal(child.status, 0, child.stderr);
     assert.equal(
-      (await stat(replacement, { bigint: true })).ino.toString(),
-      observed.replacementInode,
+      child.stderr,
+      "",
+      "Native environment teardown reported a cleanup failure",
+    );
+    const observed = JSON.parse(child.stdout);
+    assert.equal(observed.mode, mode);
+    assert.equal(observed.firstFailed, true);
+    assert.equal(observed.retainedOwner, true);
+    await assert.rejects(access(observed.renamed), { code: "ENOENT" });
+    assert.deepEqual(await readdir(temp), [observed.name]);
+    const replacement = join(temp, observed.name);
+    const identity = await stat(replacement, { bigint: true });
+    assert.equal(identity.dev.toString(), observed.device);
+    assert.equal(identity.ino.toString(), observed.replacementInode);
+    assert.notEqual(identity.ino.toString(), observed.inode);
+    assert.deepEqual(await readdir(replacement), ["unrelated.txt"]);
+    assert.equal(
+      await readFile(join(replacement, "unrelated.txt"), "utf8"),
+      "unrelated replacement",
     );
-    await rmdir(replacement);
-    assert.deepEqual(await readdir(temp), []);
   }
   process.stdout.write(
-    `${JSON.stringify({ ok: true, controlledDispositionFailure: true, retainedOwner: true, renamedOwnerCleanup: true, replacementPreserved: true, retryRecovers: true, successfulAdmissionCached: true, environmentTeardownCleansProbe: true, issue1701HostCauseReproduced: false })}\n`,
+    `${JSON.stringify({ ok: true, controlledDispositionFailure: true, retainedOwner: true, renamedOwnerCleansChildren: true, unrelatedReplacementPreserved: true, retryRecovers: true, successfulAdmissionCached: true, environmentTeardownCleansProbe: true, issue1701HostCauseReproduced: false })}\n`,
   );
 } finally {
   await rm(workspace, { recursive: true, force: true });

src/application/ClientConfigurationDocument.ts

@@ -167,7 +167,7 @@ export const parseZcodeFallbackConfiguration = (
         ? {}
         : requireObject(document.mcpServers, "ZCode fallback mcpServers"),
     serversPath: ["mcpServers"],
-    dialect: "json",
+    dialect: "zcode_fallback",
     legacyServers: {},
   };
 };
@@ -183,6 +183,7 @@ export const parseClientConfiguration = (
   if (format === undefined || format === "unsupported")
     throw new TypeError("client does not have a supported MCP config format");
   // DeepSeek Harness stores a Cordis patch list, not a server table.
+  if (format === "zcode_fallback") return parseZcodeFallbackConfiguration(text);
   if (format === "dsh") return parseDshCordisDocument(text);
   const document = parseDocument(text, format);
   const serversKey = clientConfigurationServersKey(format);

src/application/ReferenceSourceImport.ts

@@ -12,7 +12,7 @@ import type { ArtifactResourceScope } from "../artifacts/ArtifactResourceScope.j
 import type { AnalysisCleanupObservation } from "../domain/analysisErrorBase.js";
 import { readReferenceSource } from "../reference/ReferenceSourceReader.js";
 import type {
-  ReferenceSourceEntryKind,
+  ReferenceSourceExclusionKind,
   ReferenceSourceRead,
   ReferenceSourceReaderError,
 } from "../reference/ReferenceSourceReaderTypes.js";
@@ -111,7 +111,8 @@ const deriveInventoryState = (
       entry.limitations.length > 0 ||
       (entry.kind === "file" && entry.content_state !== "hashed") ||
       (entry.kind === "directory" && entry.tree_state !== "enumerated") ||
-      (entry.kind === "symlink" && entry.target_state !== "internal"),
+      (entry.kind === "symlink" && entry.target_state !== "internal") ||
+      entry.kind === "unknown",
   );
   if (partialEntry) return "partial";
   const partialRelationship = input.relationships.some(
@@ -142,11 +143,24 @@ const createShouldExclude =
     exclusions: HistoricalSourceGraphInput["exclusions"],
     secrets: PreparedReferenceSourceImport["secrets"],
     ignored: PreparedReferenceSourceImport["ignored"],
-  ): ((path: string, kind: ReferenceSourceEntryKind) => boolean) =>
+  ): ((path: string, kind: ReferenceSourceExclusionKind) => boolean) =>
   (path, kind) => {
-    const patternPath = kind === "directory" ? `${path}/` : path;
-    const secretMatch = secrets.test(patternPath);
-    if (secretMatch.ignored) {
+    // An entry of unknown kind may be a directory, so directory-only rules
+    // must still exclude it; this fails closed for caller-marked secrets.
+    const patternPaths =
+      kind === "directory"
+        ? [`${path}/`]
+        : kind === "unknown"
+          ? [path, `${path}/`]
+          : [path];
+    const firstMatch = (matcher: typeof secrets) => {
+      const results = patternPaths.map((patternPath) =>
+        matcher.test(patternPath),
+      );
+      return results.find(({ ignored }) => ignored) ?? results[0];
+    };
+    const secretMatch = firstMatch(secrets);
+    if (secretMatch?.ignored === true) {
       if (!secretMatch.rule)
         throw new Error(`Ignored secret path has no matching rule: ${path}`);
       exclusions.push({
@@ -156,8 +170,8 @@ const createShouldExclude =
       });
       return true;
     }
-    const match = ignored.test(patternPath);
-    if (!match.ignored) return false;
+    const match = firstMatch(ignored);
+    if (match?.ignored !== true) return false;
     if (!match.rule)
       throw new Error(`Ignored path has no matching rule: ${path}`);
     const reason = match.rule.mark;

src/application/ReferenceSourceImportEntries.ts

@@ -45,6 +45,8 @@ const entryRecoveryGuidance = (
     return "This directory could not be read. Check its permissions, then try again.";
   if (entry.kind === "symlink")
     return "This symbolic link could not be read safely. Check the link and its permissions, then try again.";
+  if (entry.kind === "unknown")
+    return "This entry's type could not be determined. Check the parent directory and try again.";
   return "This file could not be read. Check its permissions, then try again.";
 };
 
@@ -73,6 +75,13 @@ const failedEntry = (
       classifications,
       limitations: [limitation],
     };
+  if (entry.kind === "unknown")
+    return {
+      path: entry.path,
+      kind: "unknown",
+      classifications: ["unknown"],
+      limitations: [limitation],
+    };
   return {
     path: entry.path,
     kind: "file",

src/application/SupportedClients.ts

@@ -47,6 +47,7 @@ export interface SetupClient {
     | "pi"
     | "kimi"
     | "hermes"
+    | "zcode_fallback"
     | "zcode"
     | "dsh"
     | "unsupported";
@@ -606,6 +607,14 @@ export const SUPPORTED_CLIENT_DEFINITIONS = [
     markerPath: traeUserDirectory,
     format: "json",
   },
+  {
+    name: "workbuddy",
+    displayName: "WorkBuddy",
+    skillPath: [".workbuddy", "skills"],
+    configPath: [".workbuddy", "mcp.json"],
+    markerPath: [".workbuddy"],
+    format: "json",
+  },
   {
     name: "grok_build",
     displayName: "Grok Build",

src/application/Uninstall.ts

@@ -231,12 +231,21 @@ export const systemUninstallHost = (
       const clients = supportedClients(home, platform, environment);
       redirection = appDataRedirection(clients);
       return Promise.resolve(
-        clients.flatMap((client) =>
-          uninstallConfigPaths(client).map((configPath) => ({
+        clients.flatMap((client) => [
+          ...uninstallConfigPaths(client).map((configPath) => ({
             ...client,
             configPath,
           })),
-        ),
+          ...(client.zcodeFallbackPath === undefined
+            ? []
+            : [
+                {
+                  ...client,
+                  configPath: client.zcodeFallbackPath,
+                  format: "zcode_fallback" as const,
+                },
+              ]),
+        ]),
       );
     },
     inspectClient: async (client) => {

src/application/javascript/ElectronActiveObservationService.ts

@@ -1,5 +1,6 @@
 import { dirname } from "node:path";
-import { realpath } from "node:fs/promises";
+import { constants } from "node:fs";
+import { access, realpath, stat } from "node:fs/promises";
 
 import type { ExecutionOptions } from "../AnalysisProvider.js";
 import type {
@@ -43,11 +44,35 @@ const resolveInputPath = async (
   }
 };
 
+/** Resolve the executable and require a launchable regular file before any spawn. */
+const resolveExecutablePath = async (
+  selected: string,
+): ReturnType<typeof resolveInputPath> => {
+  const resolved = await resolveInputPath("executable_path", selected);
+  if (!resolved.ok) return resolved;
+  try {
+    if (!(await stat(resolved.value)).isFile())
+      throw new Error("not a regular file");
+    if (process.platform !== "win32")
+      await access(resolved.value, constants.X_OK);
+    return resolved;
+  } catch (cause: unknown) {
+    return err({
+      issue: {
+        path: ["executable_path"],
+        reason: "invalid_value",
+        message: `executable_path ${selected} is not an executable file: ${cause instanceof Error ? cause.message : String(cause)}`,
+      },
+      cause,
+    });
+  }
+};
+
 const canonicalizeInput = async (
   input: ElectronActiveObservationInput,
 ): Promise<Result<CanonicalElectronActiveObservationInput, AnalysisError>> => {
   const [executable, application, root] = await Promise.all([
-    resolveInputPath("executable_path", input.executable_path),
+    resolveExecutablePath(input.executable_path),
     resolveInputPath("application_path", input.application_path),
     input.application_root === undefined
       ? Promise.resolve(ok(undefined))

src/browser/PlaywrightElectronActiveProvider.ts

@@ -96,13 +96,16 @@ export class PlaywrightElectronActiveProvider implements ElectronActiveObservati
         await systemProcessOwnershipHost.captureBaseline?.(options.signal);
       if (options.signal?.aborted)
         throw new BrowserObservationError(OPERATION, "cancelled");
-      application = await this.launch({
+      const launchOptions: Parameters<typeof electron.launch>[0] = {
         executablePath: paths.executable,
         cwd: paths.root,
         env: safeElectronEnvironment(this.environment, runId),
         args: ["-r", hookPath, paths.application, ...input.args],
         timeout: Math.max(1, startupDeadline - performance.now()),
-      });
+      };
+      application = await containLaunchRejections(() =>
+        this.launch(launchOptions),
+      );
       const leaderPid = application.process().pid;
       if (
         typeof leaderPid !== "number" ||
@@ -377,6 +380,88 @@ const safeElectronEnvironment = (
     ["REA_PROCESS_RUN_ID", runId] as const,
   ]);
 
+const PLAYWRIGHT_INTERNAL_FRAME = /playwright-core[\\/]lib[\\/]/;
+interface LaunchRejectionScope {
+  failure?: unknown;
+}
+const activeLaunches = new Set<LaunchRejectionScope>();
+const heldLaunchRejections = new Map<
+  Promise<unknown>,
+  {
+    readonly reason: Error;
+    readonly candidates: Set<LaunchRejectionScope>;
+    readonly hadExternalListener: boolean;
+  }
+>();
+
+const holdLaunchRejection = (
+  reason: unknown,
+  promise: Promise<unknown>,
+): void => {
+  if (
+    !(reason instanceof Error) ||
+    !PLAYWRIGHT_INTERNAL_FRAME.test(reason.stack ?? "")
+  )
+    throw reason;
+  if (!heldLaunchRejections.has(promise))
+    heldLaunchRejections.set(promise, {
+      reason,
+      candidates: new Set(activeLaunches),
+      hadExternalListener: process
+        .listeners("unhandledRejection")
+        .some((listener) => listener !== holdLaunchRejection),
+    });
+};
+
+const forwardLaunchRejection = (
+  reason: Error,
+  hadExternalListener: boolean,
+): void => {
+  // Listeners present at the original event already observed it. When the
+  // holding listener was the only listener, restore Node's fatal behavior.
+  if (!hadExternalListener)
+    process.nextTick(() => {
+      throw reason;
+    });
+};
+
+/** Playwright leaves rejected launch promises unhandled; absorb only those that repeat this launch's failure. */
+const containLaunchRejections = async <T>(
+  launch: () => Promise<T>,
+): Promise<T> => {
+  const scope: LaunchRejectionScope = {};
+  if (activeLaunches.size === 0)
+    process.on("unhandledRejection", holdLaunchRejection);
+  activeLaunches.add(scope);
+  try {
+    return await launch();
+  } catch (cause: unknown) {
+    scope.failure = cause;
+    throw cause;
+  } finally {
+    await new Promise<void>((resolve) => setImmediate(resolve));
+    activeLaunches.delete(scope);
+    if (activeLaunches.size === 0)
+      process.off("unhandledRejection", holdLaunchRejection);
+    for (const [
+      promise,
+      { reason, candidates, hadExternalListener },
+    ] of heldLaunchRejections) {
+      if (!candidates.delete(scope)) continue;
+      if (
+        scope.failure instanceof Error &&
+        reason.message !== "" &&
+        scope.failure.message.includes(reason.message)
+      )
+        heldLaunchRejections.delete(promise);
+      else if (candidates.size === 0) {
+        heldLaunchRejections.delete(promise);
+        forwardLaunchRejection(reason, hadExternalListener);
+      }
+    }
+  }
+};
+
 const providerError = (cause: unknown): AnalysisError =>
   cause instanceof AnalysisError
     ? cause

src/cli/coreBinaryCommands.ts

@@ -45,6 +45,24 @@ const registerOverviewCommands = (
       .describe("Load and update a local analysis snapshot"),
     ...nativeOpenOptionFields,
   });
+  // `analyze` declares the JavaScript integrity policy for its JavaScript
+  // lane. Preserve whether the caller supplied it until the target lane is
+  // known, then apply the JavaScript default only in that lane. The owner
+  // field fills an omission with that default, and an `.optional()` wrapper
+  // keeps reporting it, so every binary target would look like an explicit
+  // policy. Remove the owner's default before making the CLI option optional;
+  // reapply its metadata so help and `--schema` keep describing the option.
+  const ownerIntegrityPolicy =
+    javascriptApplicationOptions.shape.integrityPolicy;
+  const defaultIntegrityPolicy = ownerIntegrityPolicy.parse(undefined);
+  const policyMetadata = ownerIntegrityPolicy.meta();
+  const omittableIntegrityPolicy = ownerIntegrityPolicy
+    .removeDefault()
+    .optional();
+  const laneIntegrityPolicy =
+    policyMetadata === undefined
+      ? omittableIntegrityPolicy
+      : omittableIntegrityPolicy.meta(policyMetadata);
   cli.command(CLI_COMMANDS.analyze, {
     description: "Get an overview of an app",
     args: z.object({
@@ -54,7 +72,7 @@ const registerOverviewCommands = (
         .describe("App, program, or analysis database path"),
     }),
     options: overviewOptions.extend({
-      integrityPolicy: javascriptApplicationOptions.shape.integrityPolicy,
+      integrityPolicy: laneIntegrityPolicy,
       sourcePath: javascriptApplicationOptions.shape.sourcePath,
     }),
     run: async ({ args, options }) => {
@@ -67,7 +85,8 @@ const registerOverviewCommands = (
             runCliJavaScriptApplicationAnalysis(
               {
                 input_path: resolve(args.path),
-                integrity_policy: options.integrityPolicy,
+                integrity_policy:
+                  options.integrityPolicy ?? defaultIntegrityPolicy,
                 ...(options.sourcePath === undefined
                   ? {}
                   : { source_paths: options.sourcePath }),
@@ -90,6 +109,19 @@ const registerOverviewCommands = (
               },
             ],
           );
+        if (options.integrityPolicy !== undefined)
+          throw new AnalysisInputError(
+            "analyze_javascript_application",
+            undefined,
+            [
+              {
+                path: ["integrity_policy"],
+                reason: "invalid_value",
+                message:
+                  "An integrity policy requires the static JavaScript ASAR/directory analysis lane; binary_overview accepts no input.",
+              },
+            ],
+          );
         return runDirectAnalysis(
           args.path,
           "binary_overview",

src/domain/callPath.test.ts

@@ -337,6 +337,42 @@ describe("call path topology and capacity", () => {
   });
 });
 
+describe("directional call relationship coverage", () => {
+  it.each([
+    {
+      directions: ["callers"] as ["callers"],
+      status: "not_found",
+      exhaustive: true,
+    },
+    {
+      directions: ["callees"] as ["callees"],
+      status: "unknown",
+      exhaustive: false,
+    },
+    {
+      directions: ["callers", "callees"] as ["callers", "callees"],
+      status: "unknown",
+      exhaustive: false,
+    },
+  ])(
+    "uses $directions coverage for the forward search",
+    ({ directions, status, exhaustive }) => {
+      const limitation = "The inventory omitted a reference.";
+      const relationshipCoverage: RelationshipCoverage = {
+        status: "partial",
+        limitations: [limitation],
+        limited_directions: directions,
+      };
+      const result = run([
+        observe("0x1000", ["0x2000"], "rea-workflow", { relationshipCoverage }),
+        observe("0x2000", [], "rea-workflow", { relationshipCoverage }),
+      ]);
+      expect(result).toMatchObject({ status, search_scope: { exhaustive } });
+      expect(result.limitations).toContain(limitation);
+    },
+  );
+});
+
 describe("explicit call relationship coverage", () => {
   it("accumulates 150,000 partial reasons without argument-stack exhaustion", () => {
     const result = run([

src/domain/callPath.ts

@@ -1,3 +1,4 @@
+import { relationshipCoverageLimitations } from "./relationshipCoverage.js";
 import {
   callPathInputSchema,
   callPathResultSchema,
@@ -10,7 +11,7 @@ import {
   parseFunctionEvidence,
   type FunctionSnapshot,
 } from "./functionDossierEvidence.js";
-import { isCallerOnlyUnknownCoverage } from "./functionCallCoverage.js";
+import { isCallerOnlyIncompleteCoverage } from "./functionCallCoverage.js";
 import { compareUnicodeCodePoints } from "./unicodeCodePointOrder.js";
 
 /** Minimal directed caller-to-callee adjacency for call-path search. */
@@ -240,15 +241,12 @@ const inspectSearch = ({
       const coverage = snapshot.evidence.relationship_coverage;
       for (const limitation of snapshot.limitations)
         limitations.push(limitation);
-      if (coverage?.status === "partial")
-        for (const limitation of coverage.limitations)
+      if (coverage !== null) {
+        for (const limitation of relationshipCoverageLimitations(coverage))
           limitations.push(limitation);
-      else if (coverage?.status === "unknown")
-        limitations.push(coverage.reason);
-      for (const diagnostic of coverage !== null && "diagnostics" in coverage
-        ? coverage.diagnostics
-        : [])
-        limitations.push(diagnostic);
+        for (const diagnostic of coverage.diagnostics ?? [])
+          limitations.push(diagnostic);
+      }
       // The requested goal is a terminal for this search. Its outgoing edges
       // cannot add a path to the goal, so its dossier limits are contextual
       // but do not make the searched start-to-goal closure incomplete.
@@ -268,7 +266,7 @@ const inspectSearch = ({
         coverage === null
           ? snapshot.limitations.length > 0
           : coverage.status !== "complete" &&
-            !isCallerOnlyUnknownCoverage(coverage)
+            !isCallerOnlyIncompleteCoverage(coverage)
       )
         incompleteExpandedCoverage = true;
     } else if (node === goal) {

src/domain/functionCallCoverage.test.ts

@@ -2,7 +2,7 @@ import { describe, expect, it } from "vitest";
 
 import {
   combineFunctionRelationshipCoverage,
-  isCallerOnlyUnknownCoverage,
+  isCallerOnlyIncompleteCoverage,
 } from "./functionCallCoverage.js";
 import type { RelationshipCoverage } from "./relationshipCoverage.js";
 
@@ -22,14 +22,14 @@ const cappedCallees: RelationshipCoverage = {
 };
 const complete: RelationshipCoverage = { status: "complete" };
 
-describe("isCallerOnlyUnknownCoverage", () => {
+describe("isCallerOnlyIncompleteCoverage", () => {
   it("detects unknown callers beside complete callees", () => {
     const combined = combineFunctionRelationshipCoverage(
       unknownCallers,
       complete,
     );
     expect(combined.status).toBe("unknown");
-    expect(isCallerOnlyUnknownCoverage(combined)).toBe(true);
+    expect(isCallerOnlyIncompleteCoverage(combined)).toBe(true);
   });
 
   it("rejects unknown callees beside complete callers", () => {
@@ -37,7 +37,7 @@ describe("isCallerOnlyUnknownCoverage", () => {
       complete,
       unknownCallees,
     );
-    expect(isCallerOnlyUnknownCoverage(combined)).toBe(false);
+    expect(isCallerOnlyIncompleteCoverage(combined)).toBe(false);
   });
 
   it("rejects unknown coverage on both sides", () => {
@@ -45,7 +45,7 @@ describe("isCallerOnlyUnknownCoverage", () => {
       unknownCallers,
       unknownCallees,
     );
-    expect(isCallerOnlyUnknownCoverage(combined)).toBe(false);
+    expect(isCallerOnlyIncompleteCoverage(combined)).toBe(false);
   });
 
   it("rejects unknown callers beside IDA-capped callees", () => {
@@ -54,11 +54,37 @@ describe("isCallerOnlyUnknownCoverage", () => {
       cappedCallees,
     );
     expect(combined.status).toBe("unknown");
-    expect(isCallerOnlyUnknownCoverage(combined)).toBe(false);
+    expect(isCallerOnlyIncompleteCoverage(combined)).toBe(false);
   });
 
   it("rejects complete coverage", () => {
     const combined = combineFunctionRelationshipCoverage(complete, complete);
-    expect(isCallerOnlyUnknownCoverage(combined)).toBe(false);
+    expect(isCallerOnlyIncompleteCoverage(combined)).toBe(false);
+  });
+
+  it("retains caller-only partial coverage without relying on limitation wording", () => {
+    const combined = combineFunctionRelationshipCoverage(
+      { status: "partial", limitations: ["Missing incoming references."] },
+      complete,
+    );
+    expect(combined).toMatchObject({ limited_directions: ["callers"] });
+    expect(isCallerOnlyIncompleteCoverage(combined)).toBe(true);
+  });
+
+  it("uses explicit directions even when explanation text contains direction labels", () => {
+    expect(
+      isCallerOnlyIncompleteCoverage({
+        status: "unknown",
+        reason: "Callers: unavailable. Callees: diagnostic text.",
+        limited_directions: ["callers"],
+      }),
+    ).toBe(true);
+    expect(
+      isCallerOnlyIncompleteCoverage({
+        status: "unknown",
+        reason: "Callers: unavailable.",
+        limited_directions: ["callees"],
+      }),
+    ).toBe(false);
   });
 });

src/domain/functionCallCoverage.ts

@@ -1,4 +1,7 @@
-import type { RelationshipCoverage } from "./relationshipCoverage.js";
+import {
+  relationshipCoverageLimitations,
+  type RelationshipCoverage,
+} from "./relationshipCoverage.js";
 import type { FunctionDossier } from "./hopperValues.js";
 import { uniqueSorted } from "./canonicalOrdering.js";
 
@@ -15,25 +18,25 @@ export const combineFunctionRelationshipCoverage = (
     { direction: "callees" as const, coverage: callees },
   ];
   const diagnostics = uniqueSorted(
-    reads.flatMap(({ coverage }) =>
-      coverage !== undefined && "diagnostics" in coverage
-        ? coverage.diagnostics
-        : [],
-    ),
+    reads.flatMap(({ coverage }) => coverage?.diagnostics ?? []),
   );
   const details = diagnostics.length > 0 ? { diagnostics } : {};
+  const callersLimited = callers?.status !== "complete";
+  const calleesLimited = callees?.status !== "complete";
+  const limited_directions: Extract<
+    RelationshipCoverage,
+    { status: "partial" }
+  >["limited_directions"] = callersLimited
+    ? calleesLimited
+      ? ["callers", "callees"]
+      : ["callers"]
+    : ["callees"];
   const reasons = reads.flatMap(({ direction, coverage }) => {
     const label =
       direction === "callers" ? callerCoveragePrefix : calleeCoveragePrefix;
-    const limitations =
-      coverage === undefined
-        ? ["Provider did not report relationship coverage."]
-        : coverage.status === "unknown"
-          ? [coverage.reason]
-          : coverage.status === "partial"
-            ? coverage.limitations
-            : [];
-    return limitations.map((reason) => `${label}${reason}`);
+    return relationshipCoverageLimitations(coverage).map(
+      (reason) => `${label}${reason}`,
+    );
   });
   if (
     reads.some(
@@ -43,54 +46,48 @@ export const combineFunctionRelationshipCoverage = (
     return {
       status: "unknown",
       reason: uniqueSorted(reasons).join(" "),
+      limited_directions,
       ...details,
     };
   if (reasons.length > 0)
     return {
       status: "partial",
       limitations: uniqueSorted(reasons),
+      limited_directions,
       ...details,
     };
   return { status: "complete", ...details };
 };
 
 /**
- * Whether combined relationship coverage is unknown only on the caller side.
- * The combine helper above prefixes each direction's reasons, so a reason
- * that carries the caller prefix and no callee prefix records observed
- * callees with unobservable callers. Forward (callee-edge) searches stay
- * exhaustive under that caveat; the caller reason remains a limitation.
+ * Forward searches depend on callee coverage. Preserve the historical
+ * unknown-reason encoding when reading observations without explicit directions.
  */
-export const isCallerOnlyUnknownCoverage = (
+export const isCallerOnlyIncompleteCoverage = (
   coverage: RelationshipCoverage,
-): boolean =>
-  coverage.status === "unknown" &&
-  coverage.reason.startsWith(callerCoveragePrefix) &&
-  !coverage.reason.includes(calleeCoveragePrefix);
+): boolean => {
+  if (coverage.status === "complete") return false;
+  if (coverage.limited_directions !== undefined)
+    return !coverage.limited_directions.some(
+      (direction) => direction === "callees",
+    );
+  return (
+    coverage.status === "unknown" &&
+    coverage.reason.startsWith(callerCoveragePrefix) &&
+    !coverage.reason.includes(calleeCoveragePrefix)
+  );
+};
 
 /** Explain why two resolved call sets cannot establish call-set equality. */
 export const functionCallCoverageLimitations = (
   coverage: RelationshipCoverage | null,
   dossier: Pick<FunctionDossier, "unresolved_calls">,
 ): string[] => {
-  const limitations =
-    coverage === null
-      ? ["Provider did not report relationship coverage."]
-      : coverage.status === "unknown"
-        ? [
-            coverage.reason,
-            ...("diagnostics" in coverage ? coverage.diagnostics : []),
-          ]
-        : coverage.status === "partial"
-          ? [
-              ...coverage.limitations,
-              ...("diagnostics" in coverage ? coverage.diagnostics : []),
-            ]
-          : [];
-  limitations.push(
+  return uniqueSorted([
+    ...relationshipCoverageLimitations(coverage),
+    ...(coverage?.status === "complete" ? [] : (coverage?.diagnostics ?? [])),
     ...(dossier.unresolved_calls ?? []).map(
       ({ address, reason }) => `Unresolved call at ${address}: ${reason}`,
     ),
-  );
-  return uniqueSorted(limitations);
+  ]);
 };

src/domain/javascript/javascriptStaticAnalysis.event_source.test.ts

@@ -0,0 +1,40 @@
+import { describe, expect, it } from "vitest";
+
+import { analyzeJavaScriptStaticSource } from "./javascriptStaticAnalysis.js";
+
+const endpoints = (source: string) =>
+  analyzeJavaScriptStaticSource(source).endpoints.map(
+    ({ kind, value, mechanism }) => ({ kind, value, mechanism }),
+  );
+
+describe("server-sent event endpoints", () => {
+  it("reports EventSource URLs like WebSocket URLs", () => {
+    expect(
+      endpoints(`
+        new WebSocket("wss://chat.example/ws");
+        new EventSource("/api/chat/stream");
+        new window.EventSource("https://chat.example/events", { withCredentials: true });
+      `),
+    ).toEqual([
+      {
+        kind: "network",
+        value: "wss://chat.example/ws",
+        mechanism: "call:WebSocket",
+      },
+      {
+        kind: "network",
+        value: "/api/chat/stream",
+        mechanism: "call:EventSource",
+      },
+      {
+        kind: "network",
+        value: "https://chat.example/events",
+        mechanism: "call:window.EventSource",
+      },
+    ]);
+  });
+
+  it("keeps a dynamic EventSource URL unreported", () => {
+    expect(endpoints("new EventSource(url);")).toEqual([]);
+  });
+});

src/domain/javascript/javascriptStaticAnalysis.send_beacon.test.ts

@@ -0,0 +1,34 @@
+import { describe, expect, it } from "vitest";
+
+import { analyzeJavaScriptStaticSource } from "./javascriptStaticAnalysis.js";
+
+const endpoints = (source: string) =>
+  analyzeJavaScriptStaticSource(source).endpoints.map(
+    ({ kind, value, mechanism }) => ({ kind, value, mechanism }),
+  );
+
+describe("beacon endpoints", () => {
+  it("reports navigator.sendBeacon URLs", () => {
+    expect(
+      endpoints(`
+        navigator.sendBeacon("/api/telemetry", payload);
+        window.navigator.sendBeacon("https://metrics.example/collect");
+      `),
+    ).toEqual([
+      {
+        kind: "network",
+        value: "/api/telemetry",
+        mechanism: "call:navigator.sendBeacon",
+      },
+      {
+        kind: "network",
+        value: "https://metrics.example/collect",
+        mechanism: "call:window.navigator.sendBeacon",
+      },
+    ]);
+  });
+
+  it("keeps a dynamic beacon URL unreported", () => {
+    expect(endpoints("navigator.sendBeacon(url, payload);")).toEqual([]);
+  });
+});

src/domain/javascript/javascriptStaticAnalysisHelpers.ts

@@ -554,7 +554,13 @@ export const endpointArgument = (
   receiverFact?: JavaScriptOpenReceiverFact,
 ): string | undefined => {
   if (receiverFact === "window") return undefined;
-  if (name === "fetch" || name.endsWith(".fetch") || name === "WebSocket")
+  if (
+    name === "fetch" ||
+    name.endsWith(".fetch") ||
+    name === "WebSocket" ||
+    name === "EventSource" ||
+    name.endsWith(".EventSource")
+  )
     return stringValue(args[0]);
   if (name.endsWith(".open"))
     return xhrOpenUrl(name, args[0], args[1], receiverFact);
@@ -574,6 +580,9 @@ export const endpointArgument = (
       ? undefined
       : value;
   }
+  // navigator.sendBeacon(url, data) queues a POST to its first argument.
+  if (name === "sendBeacon" || name.endsWith(".sendBeacon"))
+    return stringValue(args[0]);
   if (name.endsWith("loadURL")) return stringValue(args[0]);
   return undefined;
 };

src/domain/referenceSourceGraph.test.ts

@@ -259,6 +259,30 @@ describe("historical source graph", () => {
 });
 
 describe("partial historical source graphs", () => {
+  it("keeps unknown-entry diagnostics outside the root commitment", () => {
+    const base = graphInput();
+    base.inventory_state = "partial";
+    base.entries[2] = {
+      path: "src/package.json",
+      kind: "unknown",
+      classifications: ["unknown"],
+      limitations: ["Permission denied at /private/first"],
+    };
+    const graph = createHistoricalSourceGraph(base);
+    const changedMessage = structuredClone(base);
+    changedMessage.entries[2] = {
+      path: "src/package.json",
+      kind: "unknown",
+      classifications: ["unknown"],
+      limitations: ["Permission denied at /private/second"],
+    };
+    const revised = createHistoricalSourceGraph(changedMessage);
+    expect(revised.root_sha256).toBe(graph.root_sha256);
+    expect(computeHistoricalSourceGraphSha256(revised)).not.toBe(
+      computeHistoricalSourceGraphSha256(graph),
+    );
+  });
+
   it("keeps an unreadable symlink target unknown and out of root identity", () => {
     const base = graphInput();
     base.inventory_state = "partial";

src/domain/referenceSourceGraph.ts

@@ -111,6 +111,10 @@ const sourceEntrySchema = z.union([
   sourceFileSchema,
   sourceDirectorySchema,
   sourceSymlinkSchema,
+  z.strictObject({
+    ...entryBaseShape,
+    kind: z.literal("unknown"),
+  }),
 ]);
 
 const sourceRelationshipSchema = z.strictObject({
@@ -361,7 +365,8 @@ const checkCompleteInventory = (
       entry.limitations.length > 0 ||
       (entry.kind === "file" && entry.content_state !== "hashed") ||
       (entry.kind === "directory" && entry.tree_state !== "enumerated") ||
-      (entry.kind === "symlink" && entry.target_state !== "internal"),
+      (entry.kind === "symlink" && entry.target_state !== "internal") ||
+      entry.kind === "unknown",
   );
   const partialRelationship = graph.relationships.some(
     ({ parse_state, resolution }) =>
@@ -478,6 +483,11 @@ const rootCommitment = (
           target: entry.target,
           target_state: entry.target_state,
         };
+      case "unknown":
+        return {
+          kind: entry.kind,
+          path: entry.path,
+        };
     }
   }),
   exclusions,

src/domain/referenceSourceSummary.test.ts

@@ -81,6 +81,26 @@ describe("committed historical-source summaries", () => {
     expect(graph).toEqual(original);
   });
 
+  it("counts entries of unknown kind separately from symlinks", () => {
+    const graph = createHistoricalSourceGraph(
+      input([
+        {
+          path: "deep",
+          kind: "unknown",
+          classifications: ["unknown"],
+          limitations: ["lstat: ENAMETOOLONG"],
+        },
+      ]),
+    );
+    expect(createHistoricalSourceSummary(graph, 1).counts).toMatchObject({
+      entries: 1,
+      files: 0,
+      directories: 0,
+      symlinks: 0,
+      unknown: 1,
+    });
+  });
+
   it("sums known bytes losslessly beyond the JSON safe integer range", () => {
     const graph = createHistoricalSourceGraph(
       input(

src/domain/referenceSourceSummary.ts

@@ -29,6 +29,7 @@ export const createHistoricalSourceSummary = (
     files: 0,
     directories: 0,
     symlinks: 0,
+    unknown: 0,
     relationships: graph.relationships.length,
     parse_failures: graph.parse_failures.length,
     exclusions: graph.exclusions.length,
@@ -59,7 +60,8 @@ export const createHistoricalSourceSummary = (
     } else if (entry.kind === "directory") {
       counts.directories += 1;
       treeStates[entry.tree_state] += 1;
-    } else counts.symlinks += 1;
+    } else if (entry.kind === "symlink") counts.symlinks += 1;
+    else counts.unknown += 1;
     // Canonical entries already use Unicode code-point order; filtering preserves it.
     if (entry.path.split("/").length <= outlineDepth)
       outline.push(outlineEntry(entry));

src/domain/relationshipCoverage.ts

@@ -1,24 +1,51 @@
 import { z } from "zod";
 
-const diagnostics = z.array(z.string().min(1)).min(1);
-const completeCoverage = z.strictObject({ status: z.literal("complete") });
+const diagnostics = z.array(z.string().min(1)).min(1).exactOptional();
+const completeCoverage = z.strictObject({
+  status: z.literal("complete"),
+  diagnostics,
+});
+const limitedDirections = z.union([
+  z.tuple([z.literal("callers")]).check(z.minLength(1), z.maxLength(1)),
+  z.tuple([z.literal("callees")]).check(z.minLength(1), z.maxLength(1)),
+  z
+    .tuple([z.literal("callers"), z.literal("callees")])
+    .check(z.minLength(2), z.maxLength(2)),
+]);
 const partialCoverage = z.strictObject({
   status: z.literal("partial"),
   limitations: z.array(z.string().min(1)).min(1),
+  limited_directions: limitedDirections.exactOptional(),
+  diagnostics,
 });
 const unknownCoverage = z.strictObject({
   status: z.literal("unknown"),
   reason: z.string().min(1),
+  limited_directions: limitedDirections.exactOptional(),
+  diagnostics,
 });
 
 /** Explicit coverage state for a provider's observed caller/callee set. */
-export const relationshipCoverageSchema = z.union([
+export const relationshipCoverageSchema = z.discriminatedUnion("status", [
   completeCoverage,
-  completeCoverage.extend({ diagnostics }),
   partialCoverage,
-  partialCoverage.extend({ diagnostics }),
   unknownCoverage,
-  unknownCoverage.extend({ diagnostics }),
 ]);
 
 export type RelationshipCoverage = z.infer<typeof relationshipCoverageSchema>;
+
+/** Reasons the observed relationship inventory cannot establish completeness. */
+export const relationshipCoverageLimitations = (
+  coverage: RelationshipCoverage | null | undefined,
+): readonly string[] => {
+  switch (coverage?.status) {
+    case undefined:
+      return ["Provider did not report relationship coverage."];
+    case "complete":
+      return [];
+    case "partial":
+      return coverage.limitations;
+    case "unknown":
+      return [coverage.reason];
+  }
+};

src/generatedPackageMetadata.ts

@@ -5,5 +5,5 @@ export const PACKAGE_METADATA = {
   serverSdkVersion: "2.3.1",
   clientSdkVersion: "2.3.1",
   coreSdkVersion: "2.3.1",
-  skillVersion: "41",
+  skillVersion: "42",
 } as const;

src/ghidra/GhidraAnalysisProfile.ts

@@ -40,6 +40,8 @@ import {
   NATIVE_AOT_PROFILE_CONTRACT_REVISION,
 } from "../domain/native/nativeAotPe.js";
 
+const callRelationshipCoverage = "function-body-call-coverage-v5";
+
 /**
  * The processor language REA pins for this target, or undefined when Ghidra may
  * select from the header. The committed profile and the session readback both
@@ -125,7 +127,7 @@ export const resolveGhidraAnalysisProfile = async (
           load_image_observations: "source-mappings-entry-context-v2",
           function_body_evidence: "complete-inclusive-ranges-v1",
           function_references: "complete-body-and-entry-reference-manager-v2",
-          call_relationship_coverage: "resolved-call-reference-diagnostics-v1",
+          call_relationship_coverage: callRelationshipCoverage,
           function_dossier_coverage:
             "observed-facets-and-call-relationships-v1",
           string_inventory_evidence: "defined-data-coverage-v1",
@@ -222,7 +224,7 @@ export const resolveGhidraAnalysisProfile = async (
         load_image_observations: "source-mappings-entry-context-v2",
         function_body_evidence: "complete-inclusive-ranges-v1",
         function_references: "complete-body-and-entry-reference-manager-v2",
-        call_relationship_coverage: "resolved-call-reference-diagnostics-v1",
+        call_relationship_coverage: callRelationshipCoverage,
         function_dossier_coverage: "observed-facets-and-call-relationships-v1",
         string_inventory_evidence: "defined-data-coverage-v1",
         location_resolution: "explicit-address-exact-entry-symbol-first-v3",

src/ghidra/GhidraDoctor.test.ts

@@ -15,10 +15,13 @@ import { projectGhidraDoctorInspection } from "./GhidraDoctor.js";
 const INSTALL = "/opt/ghidra_12.1.4_PUBLIC";
 const installationHost = (
   overrides: Partial<GhidraInstallationHost> = {},
+  platform: NodeJS.Platform = "linux",
 ): GhidraInstallationHost => ({
   readText: () => "application.version=12.1.4\napplication.java.min=21\n",
   executable: () => true,
   probeJava: () => ({
+    osArch: "amd64",
+    osName: platform === "win32" ? "Windows 11" : "Linux",
     version: "21.0.11",
     major: 21,
     home: "/usr/lib/jvm/jdk-21",
@@ -45,7 +48,7 @@ const inspection = (
         ? {}
         : { installDir: options.installDir }),
     },
-    installationHost(overrides),
+    installationHost(overrides, options.platform ?? "linux"),
   );
 
 const doctorHost = (
@@ -129,6 +132,8 @@ describe("Ghidra doctor integration", () => {
         { installDir: INSTALL },
         {
           probeJava: () => ({
+            osArch: "amd64",
+            osName: "Linux",
             version: "17.0.12",
             major: 17,
             home: "/usr/lib/jvm/jdk-17",

src/ghidra/GhidraFunctionValues.test.ts

@@ -43,7 +43,120 @@ const parseFunctionValueFixture = (
   return parsed.ok ? { ok: true as const, value: parsed.value.value } : parsed;
 };
 
+describe("Ghidra unresolved call locations", () => {
+  it("rejects a noncanonical unresolved call site rather than retaining unverifiable location evidence", () => {
+    expect(
+      parseGhidraFunctionResult("analyze_function", {
+        value: {
+          ...functionDossierSchema.parse(ghidraFunctionDossier()),
+          unresolved_calls: [
+            { address: "not-an-address", reason: "No call destination." },
+          ],
+        },
+        limitations: [],
+        relationship_coverage: {
+          status: "partial",
+          limitations: ["An unresolved call remains."],
+        },
+      }),
+    ).toMatchObject({ ok: false, error: { _tag: "AnalysisOutputError" } });
+  });
+});
+
 describe("Ghidra function-analysis result values", () => {
+  it("retains unavailable pseudocode instead of treating its empty representation as observed source", () => {
+    const availability = {
+      pseudocode: {
+        available: false,
+        reason: "Ghidra does not decompile external functions.",
+      },
+      comments: { available: true },
+    };
+    const parsed = parseGhidraFunctionResult("analyze_function", {
+      value: {
+        ...functionDossierSchema.parse(ghidraFunctionDossier()),
+        pseudocode: "",
+        facet_availability: availability,
+      },
+      limitations: [],
+    });
+    expect(parsed).toMatchObject({
+      ok: true,
+      value: { value: { pseudocode: "", facet_availability: availability } },
+    });
+  });
+  it.each([
+    { status: "complete", diagnostics: ["Resolved static references only."] },
+    {
+      status: "partial",
+      limitations: ["Only the first instruction range was examined."],
+    },
+    { status: "unknown", reason: "Relationship inventory was unavailable." },
+    {
+      status: "partial",
+      limitations: ["Missing callers."],
+      limited_directions: ["callers"],
+    },
+    {
+      status: "unknown",
+      reason: "Missing callees.",
+      limited_directions: ["callees"],
+    },
+  ])("preserves observed $status relationship coverage", (coverage) => {
+    const parsed = parseGhidraFunctionResult("analyze_function", {
+      value: ghidraFunctionDossier(),
+      limitations: [],
+      relationship_coverage: coverage,
+    });
+    expect(parsed).toMatchObject({
+      ok: true,
+      value: { relationshipCoverage: coverage },
+    });
+  });
+
+  it("preserves omitted relationship coverage for legacy observations", () => {
+    const parsed = parseGhidraFunctionResult("analyze_function", {
+      value: ghidraFunctionDossier(),
+      limitations: [],
+    });
+    if (!parsed.ok) throw parsed.error;
+    expect(parsed.value).not.toHaveProperty("relationshipCoverage");
+  });
+});
+
+describe("Ghidra relationship metadata validation", () => {
+  it.each([
+    { status: "partial", limitations: [] },
+    { status: "unknown", reason: "" },
+    { status: "complete", limitations: ["Truncated."] },
+    { status: "partial", limitations: ["Truncated."], limited_directions: [] },
+    {
+      status: "partial",
+      limitations: ["Truncated."],
+      limited_directions: ["callers", "callers"],
+    },
+    { status: "unknown", reason: "Missing.", limited_directions: ["incoming"] },
+    { status: "complete", limited_directions: ["callers"] },
+  ])("rejects malformed relationship coverage %j", (coverage) => {
+    expect(
+      parseGhidraFunctionResult("analyze_function", {
+        value: ghidraFunctionDossier(),
+        limitations: [],
+        relationship_coverage: coverage,
+      }),
+    ).toMatchObject({ ok: false, error: { _tag: "AnalysisOutputError" } });
+  });
+
+  it("rejects relationship metadata on unrelated function operations", () => {
+    expect(
+      parseGhidraFunctionResult("procedure_assembly", {
+        value: "ret",
+        limitations: [],
+        relationship_coverage: { status: "complete" },
+      }),
+    ).toMatchObject({ ok: false, error: { _tag: "AnalysisOutputError" } });
+  });
+
   it("preserves file-offset resolution in Evidence locations and rejects inexact offsets", () => {
     const selection = {
       file_offset: 0x210,

src/ghidra/GhidraFunctionValues.ts

@@ -27,6 +27,10 @@ import {
 import { nativeApiBoundarySchema } from "../domain/native/nativeApiBoundary.js";
 import { nativeValueFlowSchema } from "../domain/native/nativeValueFlow.js";
 import type { EvidenceLocation } from "../domain/evidence.js";
+import {
+  relationshipCoverageSchema,
+  type RelationshipCoverage,
+} from "../domain/relationshipCoverage.js";
 import { err, ok, type Result } from "../domain/result.js";
 import { analysisInputErrorFromIssues } from "../domain/inputIssueProjection.js";
 import {
@@ -307,6 +311,7 @@ const ghidraFunctionDossier = functionDossierSchema
       ...value.comments.map(({ address }) => address),
       ...value.callers.map(({ address }) => address),
       ...value.callees.map(({ address }) => address),
+      ...(value.unresolved_calls ?? []).map(({ address }) => address),
       ...value.incoming_references.flatMap(referenceAddresses),
       ...value.outgoing_references.flatMap(referenceAddresses),
       ...value.referenced_strings.flatMap(({ address, source_address }) => [
@@ -419,6 +424,7 @@ const functionBoundaryObservationOperations: ReadonlySet<GhidraFunctionOperation
 const functionObservationEnvelope = z.strictObject({
   value: z.unknown(),
   limitations: z.array(z.string()),
+  relationship_coverage: relationshipCoverageSchema.exactOptional(),
   selection: z
     .strictObject({
       file_offset: z.number().int().min(0).max(Number.MAX_SAFE_INTEGER),
@@ -432,6 +438,7 @@ export interface ParsedGhidraFunctionResult {
   readonly value: JsonValue;
   readonly limitations: readonly string[];
   readonly locations?: readonly EvidenceLocation[];
+  readonly relationshipCoverage?: RelationshipCoverage;
 }
 
 /** Require exact, bounded Java-bridge function output before creating Evidence. */
@@ -442,6 +449,7 @@ export const parseGhidraFunctionResult = (
   let observation: {
     readonly value: unknown;
     readonly limitations: readonly string[];
+    readonly relationship_coverage?: RelationshipCoverage;
     readonly selection?: z.infer<
       typeof functionObservationEnvelope
     >["selection"];
@@ -450,13 +458,17 @@ export const parseGhidraFunctionResult = (
     const envelope = functionObservationEnvelope.safeParse(value);
     if (
       !envelope.success ||
+      (operation !== "analyze_function" &&
+        operation !== "procedure_callers" &&
+        operation !== "procedure_callees" &&
+        envelope.data.relationship_coverage !== undefined) ||
       (operation !== "procedure_pseudo_code" &&
         envelope.data.selection !== undefined)
     )
       return err(
         new AnalysisOutputError(
           operation,
-          "Ghidra bridge omitted the function observation envelope",
+          "Ghidra bridge returned an invalid function observation envelope for this operation",
           envelope.success ? undefined : { cause: envelope.error },
         ),
       );
@@ -469,6 +481,9 @@ export const parseGhidraFunctionResult = (
     ? ok({
         value: jsonValueSchema.parse(parsed.data),
         limitations: observation.limitations,
+        ...(observation.relationship_coverage === undefined
+          ? {}
+          : { relationshipCoverage: observation.relationship_coverage }),
         ...(observation.selection === undefined
           ? {}
           : {

src/ghidra/GhidraInstallation.fixture.ts

@@ -12,5 +12,7 @@ export const ghidraProfileInstallationHost: GhidraInstallationHost = {
     home: "/jdk-21",
     bits: 64,
     runtime: "jdk",
+    osArch: "amd64",
+    osName: "Linux",
   }),
 };

src/ghidra/GhidraInstallation.test.ts

@@ -1,8 +1,10 @@
 import { afterEach, describe, expect, it, vi } from "vitest";
+import { spawnSync } from "node:child_process";
 
 import { elf, fat, thinMach } from "../domain/binaryTarget.fixture.js";
 import { projectGhidraDoctorInspection } from "./GhidraDoctor.js";
 import {
+  ghidraInstallationDiagnostics,
   ghidraJavaEnvironment,
   inspectGhidraInstallation,
   type GhidraExecutableHeaderProbe,
@@ -16,6 +18,14 @@ import {
   ghidraJavaRequirement,
 } from "./GhidraInstallationPolicy.js";
 
+// The real Java probe shells out via spawnSync; stub it so one test can run
+// the real probeJava against captured `-XshowSettings:properties` output.
+// Every other test overrides probeJava, so the stub never fires for them.
+vi.mock("node:child_process", async (importOriginal) => {
+  const original = await importOriginal<typeof import("node:child_process")>();
+  return { ...original, spawnSync: vi.fn() };
+});
+
 const INSTALL = "/opt/ghidra";
 const PROPERTIES = `${INSTALL}/Ghidra/application.properties`;
 const HEADLESS = `${INSTALL}/support/analyzeHeadless`;
@@ -32,6 +42,8 @@ const headerProbe = (bytes: Buffer): GhidraExecutableHeaderProbe => ({
 });
 
 const JAVA: GhidraJavaObservation = {
+  osArch: "amd64",
+  osName: "Linux",
   version: "21.0.11",
   major: SUPPORTED_GHIDRA_JAVA_MAJOR,
   home: "/usr/lib/jvm/jdk-21",
@@ -174,6 +186,11 @@ describe("Ghidra installation inspection", () => {
             { environment: {}, installDir: INSTALL, platform, architecture },
             host({
               executable: (path) => path === HEADLESS || path === decompiler,
+              probeJava: () => ({
+                ...JAVA,
+                osArch: architecture === "arm64" ? "aarch64" : "amd64",
+                osName: platform === "darwin" ? "Mac OS X" : "Linux",
+              }),
             }),
           ),
         ).toMatchObject({
@@ -202,6 +219,7 @@ describe("Ghidra installation inspection", () => {
         return {
           ...JAVA,
           home: "C:\\Java\\jdk-21",
+          osName: "Windows 11",
         };
       },
     };
@@ -721,7 +739,10 @@ describe("Ghidra FAT native decompiler admission", () => {
         platform: "darwin",
         architecture: "arm64",
       },
-      host({ executableHeader: () => headerProbe(bytes) }),
+      host({
+        probeJava: () => ({ ...JAVA, osArch: "aarch64", osName: "Mac OS X" }),
+        executableHeader: () => headerProbe(bytes),
+      }),
     );
     expect(result.status).toBe(status);
     expect(
@@ -739,7 +760,10 @@ describe("Ghidra FAT native decompiler admission", () => {
         platform: "darwin",
         architecture: "arm64",
       },
-      host({ executableHeader: () => headerProbe(bytes) }),
+      host({
+        probeJava: () => ({ ...JAVA, osArch: "aarch64", osName: "Mac OS X" }),
+        executableHeader: () => headerProbe(bytes),
+      }),
     );
     expect(result.status).toBe("available");
     expect(
@@ -788,7 +812,14 @@ describe("Ghidra native decompiler admission", () => {
   ])("distinguishes $name", ({ options, executableHeader }) => {
     const result = inspectGhidraInstallation(
       options,
-      host({ executableHeader }),
+      host({
+        probeJava: () => ({
+          ...JAVA,
+          osArch: options.architecture === "arm64" ? "aarch64" : "amd64",
+          osName: options.platform === "darwin" ? "Mac OS X" : "Linux",
+        }),
+        executableHeader,
+      }),
     );
     expect(result.status).toBe("unavailable");
     expect(
@@ -849,6 +880,7 @@ describe("Ghidra native decompiler admission", () => {
         architecture: "arm64",
       },
       host({
+        probeJava: () => ({ ...JAVA, osArch: "aarch64", osName: "Mac OS X" }),
         executableHeader: (path: string) =>
           path === MAC_DECOMPILER ? headerProbe(bytes) : undefined,
       }),
@@ -872,6 +904,7 @@ describe("Ghidra native decompiler admission", () => {
         architecture: "arm64",
       },
       host({
+        probeJava: () => ({ ...JAVA, osArch: "aarch64", osName: "Mac OS X" }),
         executableHeader: (path: string) =>
           path === MAC_DECOMPILER ? headerProbe(elf(2, 1, 62)) : undefined,
       }),
@@ -889,3 +922,205 @@ describe("Ghidra native decompiler admission", () => {
     });
   });
 });
+
+describe("Ghidra JVM native directory admission", () => {
+  it("rejects a JDK whose os.arch selects a different native decompiler directory", () => {
+    const result = inspectGhidraInstallation(
+      {
+        environment: {},
+        installDir: INSTALL,
+        platform: "darwin",
+        architecture: "arm64",
+      },
+      host({
+        probeJava: () => ({ ...JAVA, osArch: "x86_64", osName: "Mac OS X" }),
+      }),
+    );
+    expect(result.status).toBe("unavailable");
+    if (result.status !== "unavailable") return;
+    expect(
+      result.checks.find(({ name }) => name === "native_decompiler"),
+    ).toMatchObject({
+      status: "failed",
+      code: "executable_missing",
+      detail: expect.stringContaining(
+        "JVM reports os.arch=x86_64, so Ghidra selects its native decompiler from os/mac_x86_64",
+      ),
+      remediation: expect.stringContaining("JAVA_HOME"),
+    });
+  });
+
+  it("accepts a JDK whose os.arch selects the validated native decompiler directory", () => {
+    const result = inspectGhidraInstallation(
+      {
+        environment: {},
+        installDir: INSTALL,
+        platform: "darwin",
+        architecture: "arm64",
+      },
+      host({
+        probeJava: () => ({ ...JAVA, osArch: "aarch64", osName: "Mac OS X" }),
+      }),
+    );
+    expect(result.status).toBe("available");
+  });
+
+  it("rejects a successful Java probe that omits os.arch", () => {
+    const { osArch: _observedArchitecture, ...withoutArchitecture } = JAVA;
+    const result = inspectGhidraInstallation(
+      {
+        environment: {},
+        installDir: INSTALL,
+        platform: "darwin",
+        architecture: "arm64",
+      },
+      host({ probeJava: () => withoutArchitecture }),
+    );
+    expect(result.status).toBe("unavailable");
+    expect(
+      result.checks.find(({ name }) => name === "native_decompiler"),
+    ).toMatchObject({
+      status: "failed",
+      detail: expect.stringContaining("did not report os.arch"),
+    });
+    expect(projectGhidraDoctorInspection(result).available).toBe(false);
+  });
+
+  it.each(["riscv64", "sparcv9", ""])(
+    "refuses an unrecognized JVM os.arch (%s) instead of assuming alignment",
+    (osArch) => {
+      const result = inspectGhidraInstallation(
+        {
+          environment: {},
+          installDir: INSTALL,
+          platform: "darwin",
+          architecture: "arm64",
+        },
+        host({
+          probeJava: () => ({ ...JAVA, osArch }),
+        }),
+      );
+      expect(result.status).toBe("unavailable");
+      if (result.status !== "unavailable") return;
+      expect(
+        result.checks.find(({ name }) => name === "native_decompiler"),
+      ).toMatchObject({
+        status: "failed",
+        detail: expect.stringContaining("unrecognized os.arch="),
+      });
+    },
+  );
+
+  it("rejects a JDK whose os.name selects a different host OS", () => {
+    const result = inspectGhidraInstallation(
+      {
+        environment: {},
+        installDir: INSTALL,
+        platform: "darwin",
+        architecture: "arm64",
+      },
+      host({
+        probeJava: () => ({
+          ...JAVA,
+          osArch: "aarch64",
+          osName: "Windows 11",
+        }),
+      }),
+    );
+    expect(result.status).toBe("unavailable");
+    if (result.status !== "unavailable") return;
+    expect(
+      result.checks.find(({ name }) => name === "native_decompiler"),
+    ).toMatchObject({
+      status: "failed",
+      code: "executable_missing",
+      detail: expect.stringContaining("JVM reports os.name=Windows 11"),
+      remediation: expect.stringContaining("JAVA_HOME"),
+    });
+  });
+});
+
+describe("Ghidra JVM OS admission", () => {
+  it("rejects a successful Java probe that omits os.name", () => {
+    const { osName: _observedOsName, ...withoutOsName } = JAVA;
+    const result = inspectGhidraInstallation(
+      {
+        environment: {},
+        installDir: INSTALL,
+        platform: "linux",
+        architecture: "x64",
+      },
+      host({ probeJava: () => withoutOsName }),
+    );
+    expect(result.status).toBe("unavailable");
+    expect(
+      result.checks.find(({ name }) => name === "native_decompiler"),
+    ).toMatchObject({
+      status: "failed",
+      detail: expect.stringContaining("did not report os.name"),
+    });
+    expect(projectGhidraDoctorInspection(result).available).toBe(false);
+  });
+
+  it.each(["SunOS", "FreeBSD", ""])(
+    "refuses an unrecognized JVM os.name (%s) instead of assuming alignment",
+    (osName) => {
+      const result = inspectGhidraInstallation(
+        {
+          environment: {},
+          installDir: INSTALL,
+          platform: "linux",
+          architecture: "x64",
+        },
+        host({
+          probeJava: () => ({ ...JAVA, osName }),
+        }),
+      );
+      expect(result.status).toBe("unavailable");
+      if (result.status !== "unavailable") return;
+      expect(
+        result.checks.find(({ name }) => name === "native_decompiler"),
+      ).toMatchObject({
+        status: "failed",
+        detail: expect.stringContaining("os.name="),
+      });
+    },
+  );
+});
+
+describe("Ghidra Java probe os.arch extraction", () => {
+  it("extracts os.arch through the real Java probe into the installation diagnostics", () => {
+    vi.mocked(spawnSync).mockReturnValue({
+      status: 0,
+      stdout: "",
+      stderr: [
+        "Property settings:",
+        "    file.encoding = UTF-8",
+        "    java.home = /usr/lib/jvm/jdk-21",
+        "    java.version = 21.0.11",
+        "    java.vm.name = OpenJDK 64-Bit Server VM",
+        "    os.arch = x86_64",
+        "    os.name = Linux",
+        "    sun.arch.data.model = 64",
+        "",
+      ].join("\n"),
+    } as never);
+    try {
+      // No host override: the real system host runs the real probeJava
+      // against the stubbed spawnSync.
+      const inspection = inspectGhidraInstallation({
+        environment: {},
+        installDir: INSTALL,
+        javaHome: "/usr/lib/jvm/jdk-21",
+        platform: "linux",
+        architecture: "x64",
+      });
+      expect(ghidraInstallationDiagnostics(inspection)).toMatchObject({
+        java_os_arch: "x86_64",
+        java_os_name: "Linux",
+      });
+    } finally {
+      vi.mocked(spawnSync).mockReset();
+    }
+  });
+});

src/ghidra/GhidraInstallation.ts

@@ -203,6 +203,17 @@ interface GhidraInstallationObservation {
   readonly javaCommand: string;
   /** Observed java.vm.name; omitted when the probe cannot establish VM identity. */
   readonly javaVmName?: string;
+  /**
+   * Observed JVM os.arch; omitted when the probe cannot establish it. Ghidra
+   * selects its native decompiler directory from this value.
+   */
+  readonly javaOsArch?: string;
+  /**
+   * Observed JVM os.name; omitted when the probe cannot establish it. Ghidra
+   * selects its native decompiler OS directory from the JVM OS/architecture
+   * pair, so a non-host value selects an unvalidated directory.
+   */
+  readonly javaOsName?: string;
   readonly checks: readonly GhidraInstallationCheck[];
 }
 
@@ -244,6 +255,17 @@ export interface GhidraJavaObservation {
   readonly bits: number;
   readonly runtime: "jdk" | "jre";
   readonly vmName?: string;
+  /**
+   * Observed JVM os.arch property, which Ghidra uses to select its native
+   * decompiler directory. Omitted when the probe cannot establish it.
+   */
+  readonly osArch?: string;
+  /**
+   * Observed JVM os.name property, which Ghidra uses with os.arch to select
+   * its native decompiler OS directory. Omitted when the probe cannot
+   * establish it.
+   */
+  readonly osName?: string;
 }
 
 /** A bounded executable-header probe: a small prefix plus the whole file size. */
@@ -324,6 +346,12 @@ export const inspectGhidraInstallation = (
     ...(coordinates.java?.vmName === undefined
       ? {}
       : { javaVmName: coordinates.java.vmName }),
+    ...(coordinates.java?.osArch === undefined
+      ? {}
+      : { javaOsArch: coordinates.java.osArch }),
+    ...(coordinates.java?.osName === undefined
+      ? {}
+      : { javaOsName: coordinates.java.osName }),
     checks,
   };
   if (failed !== undefined)
@@ -555,6 +583,8 @@ export const ghidraInstallationDiagnostics = (
   java_home: inspection.javaHome,
   java_version: inspection.javaVersion,
   java_vm_name: inspection.javaVmName ?? null,
+  java_os_arch: inspection.javaOsArch ?? null,
+  java_os_name: inspection.javaOsName ?? null,
   platform: inspection.platform,
   architecture: inspection.architecture,
   checks: inspection.checks.map((check) => ({
@@ -632,6 +662,61 @@ const nativeDecompilerCheck = ({
           architecture,
           host.executableHeader?.(path),
         );
+  // Ghidra resolves its native decompiler directory from the JVM's os.arch,
+  // not the host process architecture. A JDK running under emulation (for
+  // example x86_64 under Rosetta on Apple silicon) selects a directory that
+  // was never validated, so every analysis fails after a passing doctor.
+  // Ghidra resolves the OS directory from the JVM os.name/os.arch pair, so a
+  // JVM reporting a non-host os.name (for example through -Dos.name=Windows)
+  // selects a different OS directory even when os.arch matches.
+  const osArch = coordinates.java?.osArch;
+  const osName = coordinates.java?.osName;
+  const selectedDirectory = jvmOsArchNativeDirectory(platform, osArch);
+  const validatedDirectory = NATIVE_PLATFORMS[platform]?.[architecture];
+  // Without a JVM observation the java check reports the missing runtime;
+  // the decompiler directory cannot be selected, so this check defers to it.
+  if (coordinates.java !== undefined) {
+    if (selectedDirectory === undefined)
+      return installationCheck({
+        name: "native_decompiler",
+        passed: false,
+        code: "executable_missing",
+        detail:
+          osArch === undefined
+            ? "The Java probe did not report os.arch; the JVM-selected native decompiler directory is unknown and cannot be matched to the validated host directory"
+            : `JVM reports unrecognized os.arch=${osArch}; its selected native decompiler directory is unknown and cannot be matched to the validated host directory`,
+        remediation: `Point JAVA_HOME at a JDK whose reported architecture maps to the validated Ghidra decompiler (${validatedDirectory ?? "unsupported host"}). REA does not build or install native tools.`,
+      });
+    if (
+      validatedDirectory !== undefined &&
+      selectedDirectory !== validatedDirectory &&
+      path !== null
+    )
+      return installationCheck({
+        name: "native_decompiler",
+        passed: false,
+        code: "executable_missing",
+        detail: `JVM reports os.arch=${osArch}, so Ghidra selects its native decompiler from os/${selectedDirectory}, but the validated decompiler targets ${validatedDirectory} (host ${platform}/${architecture})`,
+        remediation: `Point JAVA_HOME at a JDK whose architecture matches the built decompiler (${validatedDirectory}). REA does not build or install native tools.`,
+      });
+    if (osName === undefined)
+      return installationCheck({
+        name: "native_decompiler",
+        passed: false,
+        code: "executable_missing",
+        detail:
+          "The Java probe did not report os.name; the JVM-selected native decompiler OS directory is unknown and cannot be matched to the validated host platform",
+        remediation: `Point JAVA_HOME at a JDK whose reported operating system matches the host platform (${platform}). REA does not build or install native tools.`,
+      });
+    if (!jvmOsNameMatchesPlatform(platform, osName) && path !== null)
+      return installationCheck({
+        name: "native_decompiler",
+        passed: false,
+        code: "executable_missing",
+        detail: `JVM reports os.name=${osName}, which does not match the validated host platform ${platform} (host ${platform}/${architecture})`,
+        remediation: `Point JAVA_HOME at a JDK whose reported operating system matches the host platform (${platform}). REA does not build or install native tools.`,
+      });
+  }
   return installationCheck({
     name: "native_decompiler",
     passed: path !== null && compatibility?.status !== "incompatible",
@@ -646,6 +731,43 @@ const nativeDecompilerCheck = ({
   });
 };
 
+/**
+ * Whether a JVM os.name value selects the host platform's native OS directory.
+ * Unknown values never align with the validated host directory; admission
+ * must not treat them as matching.
+ */
+const jvmOsNameMatchesPlatform = (
+  platform: NodeJS.Platform,
+  osName: string,
+): boolean => {
+  const normalized = osName.toLowerCase();
+  if (platform === "win32") return normalized.startsWith("windows");
+  if (platform === "darwin")
+    return normalized.startsWith("mac") || normalized.startsWith("darwin");
+  if (platform === "linux") return normalized.startsWith("linux");
+  return false;
+};
+
+/**
+ * Map a JVM os.arch value to the Ghidra native directory that JVM selects.
+ * Unknown values stay unknown; admission must not treat them as aligned with
+ * the validated host directory.
+ */
+const jvmOsArchNativeDirectory = (
+  platform: NodeJS.Platform,
+  osArch: string | undefined,
+): string | undefined => {
+  if (osArch === undefined) return undefined;
+  const normalized = osArch.toLowerCase();
+  const node: NodeJS.Architecture | undefined =
+    normalized === "x86_64" || normalized === "amd64" || normalized === "x64"
+      ? "x64"
+      : normalized === "aarch64" || normalized === "arm64"
+        ? "arm64"
+        : undefined;
+  return node === undefined ? undefined : NATIVE_PLATFORMS[platform]?.[node];
+};
+
 const versionCheck = (
   properties: GhidraApplicationProperties | undefined,
 ): GhidraInstallationCheck => {
@@ -781,6 +903,8 @@ const systemGhidraInstallationHost = (): GhidraInstallationHost => ({
     const version = javaProperty(output, "java.version");
     const home = javaProperty(output, "java.home");
     const vmName = javaProperty(output, "java.vm.name");
+    const osArch = javaProperty(output, "os.arch");
+    const osName = javaProperty(output, "os.name");
     const bits = Number.parseInt(
       javaProperty(output, "sun.arch.data.model") ?? "0",
       10,
@@ -791,6 +915,8 @@ const systemGhidraInstallationHost = (): GhidraInstallationHost => ({
       major: javaMajor(version),
       home,
       ...(vmName === null ? {} : { vmName }),
+      ...(osArch === null ? {} : { osArch }),
+      ...(osName === null ? {} : { osName }),
       bits,
       runtime: executablePath(
         (process.platform === "win32" ? win32 : posix).join(

src/ghidra/GhidraJavaLaunch.ts

@@ -2,11 +2,43 @@ import { snapshotEnvironment } from "../process/snapshotEnvironment.js";
 import { dirname, join } from "node:path";
 import { execFileOutput } from "../process/ExecFileOutput.js";
 
+/** JVM option environments remove quotes, including quotes inside an option. */
+const jvmEnvironmentArguments = (value: string): readonly string[] => {
+  const arguments_: string[] = [];
+  let argument = "";
+  let quote: "'" | '"' | undefined;
+  for (const character of value) {
+    if (quote !== undefined) {
+      if (character === quote) quote = undefined;
+      else argument += character;
+    } else if (character === "'" || character === '"') quote = character;
+    else if (/\s/u.test(character)) {
+      if (argument !== "") arguments_.push(argument);
+      argument = "";
+    } else argument += character;
+  }
+  if (quote !== undefined)
+    throw new Error(
+      "Invalid quoted Ghidra LaunchSupport JVM environment option",
+    );
+  if (argument !== "") arguments_.push(argument);
+  return arguments_;
+};
+
+const rejectJvmPlatformOverrides = (arguments_: readonly string[]): void => {
+  if (
+    arguments_.some((argument) => /^-Dos\.(?:arch|name)(?:=|$)/u.test(argument))
+  )
+    throw new Error(
+      "Ghidra LaunchSupport may not override os.arch or os.name; the native decompiler was validated for the inspected JVM platform.",
+    );
+};
+
 /** Launch coordinates obtained from Ghidra's own release configuration helper. */
 export const ghidraJavaLaunch = async (options: {
   readonly platform: NodeJS.Platform;
   readonly analyzeHeadlessPath: string;
-  readonly javaHome: string;
+  readonly javaHome?: string;
   readonly javaVmName?: string;
   readonly homeRoot: string;
   readonly tempRoot: string;
@@ -21,7 +53,17 @@ export const ghidraJavaLaunch = async (options: {
 }> => {
   const supportRoot = dirname(options.analyzeHeadlessPath);
   const installRoot = dirname(supportRoot);
-  const command = join(options.javaHome, "bin", "java");
+  const selectedJavaHome = options.javaHome ?? options.environment.JAVA_HOME;
+  const command =
+    selectedJavaHome === undefined
+      ? options.platform === "win32"
+        ? "java.exe"
+        : "java"
+      : join(
+          selectedJavaHome,
+          "bin",
+          options.platform === "win32" ? "java.exe" : "java",
+        );
   const isolatedProperties = [
     `-Duser.home=${options.homeRoot}`,
     `-Djava.io.tmpdir=${options.tempRoot}`,
@@ -48,6 +90,9 @@ export const ghidraJavaLaunch = async (options: {
     [...supportArguments, "-envvars"],
     {
       env: environment,
+      // Wait for the helper's exit on abort so a cancelled or timed-out
+      // startup never leaves the probe running without an owning process.
+      stopSignal: "SIGTERM",
       ...(options.signal === undefined ? {} : { signal: options.signal }),
     },
   );
@@ -65,11 +110,25 @@ export const ghidraJavaLaunch = async (options: {
     if ((environment[key] ?? "") === "")
       environment[key] = line.slice(separator + 1);
   }
+  // The merged environment becomes the analysis JVM's environment, and the
+  // JVM applies these options variables automatically. An injected
+  // -Dos.arch/-Dos.name there selects an unvalidated native directory without
+  // appearing in vmArguments, so reject the effective values as well.
+  for (const key of [
+    "JAVA_TOOL_OPTIONS",
+    "_JAVA_OPTIONS",
+    "JDK_JAVA_OPTIONS",
+  ] as const) {
+    rejectJvmPlatformOverrides(jvmEnvironmentArguments(environment[key] ?? ""));
+  }
   const configuredArguments = await execFileOutput(
     command,
     [...supportArguments, "-vmargs"],
     {
       env: environment,
+      // Wait for the helper's exit on abort so a cancelled or timed-out
+      // startup never leaves the probe running without an owning process.
+      stopSignal: "SIGTERM",
       ...(options.signal === undefined ? {} : { signal: options.signal }),
     },
   );
@@ -83,6 +142,7 @@ export const ghidraJavaLaunch = async (options: {
     )
   )
     throw new Error("Invalid Ghidra LaunchSupport JVM argument");
+  rejectJvmPlatformOverrides(vmArguments);
   return {
     command,
     environment,

src/ghidra/GhidraLauncher.ts

@@ -172,6 +172,8 @@ export interface GhidraHeadlessLauncherOptions {
   readonly mipsSoftFloat?: true;
   /** Spawn seam for provider-boundary lifecycle tests. */
   readonly spawnProcess?: typeof spawnOwnedProviderProcess;
+  /** LaunchSupport probe seam for Java-free launcher fixtures. */
+  readonly javaLaunch?: typeof ghidraJavaLaunch;
 }
 
 /** Launch Ghidra without copying scripts into or modifying its installation. */
@@ -303,43 +305,46 @@ export class GhidraHeadlessLauncher implements GhidraLauncher {
         throw new GhidraLaunchError(
           "POSIX Ghidra requires its inspected JDK home",
         );
+      const inspectedJavaLaunch = await (
+        this.options.javaLaunch ?? ghidraJavaLaunch
+      )({
+        platform,
+        analyzeHeadlessPath: this.options.analyzeHeadlessPath,
+        ...(this.options.javaHome === undefined
+          ? {}
+          : { javaHome: this.options.javaHome }),
+        ...(this.options.javaVmName === undefined
+          ? {}
+          : { javaVmName: this.options.javaVmName }),
+        homeRoot: paths.homeRoot,
+        tempRoot: paths.tempRoot,
+        arguments: headlessArguments,
+        environment,
+        onStderr: (mode, stderr) => {
+          if (stderr === "") return;
+          const bytes = Buffer.byteLength(stderr);
+          const redacted = redactCapturedTransportCredential(
+            { text: stderr, bytes, observedBytes: bytes },
+            session.token,
+            "[REDACTED]",
+          );
+          const bounded = boundedUtf8Text(
+            redacted,
+            GHIDRA_LAUNCH_COMMAND_OUTPUT_BYTES,
+          );
+          launchSupport.push({
+            mode,
+            stderr: bounded.text,
+            stderr_bytes: bytes,
+            stderr_truncated: bounded.truncated,
+          });
+        },
+        ...(options.signal === undefined ? {} : { signal: options.signal }),
+      });
       const command =
-        platform !== "win32" && this.options.javaHome !== undefined
-          ? await ghidraJavaLaunch({
-              platform,
-              analyzeHeadlessPath: this.options.analyzeHeadlessPath,
-              javaHome: this.options.javaHome,
-              ...(this.options.javaVmName === undefined
-                ? {}
-                : { javaVmName: this.options.javaVmName }),
-              homeRoot: paths.homeRoot,
-              tempRoot: paths.tempRoot,
-              arguments: headlessArguments,
-              environment,
-              onStderr: (mode, stderr) => {
-                if (stderr === "") return;
-                const bytes = Buffer.byteLength(stderr);
-                const redacted = redactCapturedTransportCredential(
-                  { text: stderr, bytes, observedBytes: bytes },
-                  session.token,
-                  "[REDACTED]",
-                );
-                const bounded = boundedUtf8Text(
-                  redacted,
-                  GHIDRA_LAUNCH_COMMAND_OUTPUT_BYTES,
-                );
-                launchSupport.push({
-                  mode,
-                  stderr: bounded.text,
-                  stderr_bytes: bytes,
-                  stderr_truncated: bounded.truncated,
-                });
-              },
-              ...(options.signal === undefined
-                ? {}
-                : { signal: options.signal }),
-            })
-          : { ...scriptCommand, environment };
+        platform === "win32"
+          ? { ...scriptCommand, environment }
+          : inspectedJavaLaunch;
       started = await (this.options.spawnProcess ?? spawnOwnedProviderProcess)({
         command: command.command,
         arguments: command.arguments,

src/ghidra/GhidraProvider.behavior.test.ts

@@ -37,12 +37,16 @@ import { projectAnalysisError } from "../domain/analysisErrorProjection.js";
 import { ProviderStartupDeadline } from "../process/ProviderDeadline.js";
 
 const INSTALL = "/opt/ghidra_12.1.4_PUBLIC";
-const installationHost = (): GhidraInstallationHost => ({
-  platform: "linux",
+const installationHost = (
+  platform: NodeJS.Platform = "linux",
+): GhidraInstallationHost => ({
+  platform,
   architecture: "x64",
   readText: () => "application.version=12.1.4\napplication.java.min=21\n",
   executable: () => true,
   probeJava: () => ({
+    osArch: "amd64",
+    osName: platform === "win32" ? "Windows 11" : "Linux",
     version: "21.0.11",
     major: 21,
     home: "/usr/lib/jvm/jdk-21",
@@ -102,7 +106,7 @@ describe("Ghidra provider", () => {
         },
       },
     });
-    const windows = provider({ ...installationHost(), platform: "win32" });
+    const windows = provider(installationHost("win32"));
     expect(windows.inspectTargetSupport(target).status).toBe("unsupported");
   });
   it("discovers the exact installation once without launching Ghidra", () => {
@@ -112,6 +116,8 @@ describe("Ghidra provider", () => {
       probeJava: () => {
         probeCount += 1;
         return {
+          osArch: "amd64",
+          osName: "Linux",
           version: "21.0.11",
           major: 21,
           home: "/usr/lib/jvm/jdk-21",
@@ -193,7 +199,7 @@ describe("Ghidra provider", () => {
 
 describe("Ghidra raw-binary profile", () => {
   it("admits raw 6502 on Windows and binds its 16-bit language without mutation authority", async () => {
-    const ghidra = provider({ ...installationHost(), platform: "win32" });
+    const ghidra = provider(installationHost("win32"));
     const target: BinaryTarget = {
       path: "/tmp/6502.bin",
       sha256: "a".repeat(64),
@@ -260,7 +266,7 @@ describe("Ghidra raw-binary profile", () => {
     expect(shifted.value.profile?.digest).not.toBe(
       resolved.value.profile.digest,
     );
-    const windows = provider({ ...installationHost(), platform: "win32" });
+    const windows = provider(installationHost("win32"));
     expect(windows.inspectTargetSupport(target).status).toBe("unsupported");
   });
 });
@@ -302,7 +308,7 @@ describe("Ghidra Mach-O slice support", () => {
 
 describe("Ghidra platform support", () => {
   it("commits the PE role and managed classification to profile identity", async () => {
-    const ghidra = provider({ ...installationHost(), platform: "win32" });
+    const ghidra = provider(installationHost("win32"));
     const application = peTarget("x86_64");
     const library = {
       ...application,
@@ -343,7 +349,7 @@ describe("Ghidra platform support", () => {
   });
 
   it("keeps Windows annotation mutation unavailable independently of native controls", () => {
-    const ghidra = provider({ ...installationHost(), platform: "win32" });
+    const ghidra = provider(installationHost("win32"));
     expect(
       ghidra
         .capabilities()
@@ -363,7 +369,7 @@ describe("Ghidra platform support", () => {
         reason: WINDOWS_NATIVE_AUTHORITY_UNAVAILABLE_REASON,
       });
     onTestFinished(() => native.mockRestore());
-    const ghidra = provider({ ...installationHost(), platform: "win32" });
+    const ghidra = provider(installationHost("win32"));
     const nativeApplication = peTarget("x86_64");
 
     for (const architecture of ["x86", "x86_64"] as const)
@@ -454,7 +460,7 @@ describe("Ghidra Windows PE fixture admission", () => {
     await promisify(execFile)(process.execPath, [
       join(root, "scripts/create-ghidra-windows-fixture.mjs"),
     ]);
-    const ghidra = provider({ ...installationHost(), platform: "win32" });
+    const ghidra = provider(installationHost("win32"));
     for (const architecture of ["x86", "x86_64"] as const) {
       for (const dll of [false, true]) {
         const path = join(
@@ -627,7 +633,7 @@ describe("Ghidra client projection", () => {
     expect(resolved.value.profile.parameters).toMatchObject({
       language_id: "auto-from-header",
       compiler_spec_id: "auto-default",
-      call_relationship_coverage: "resolved-call-reference-diagnostics-v1",
+      call_relationship_coverage: "function-body-call-coverage-v5",
       function_dossier_coverage: "observed-facets-and-call-relationships-v1",
     });
 
@@ -864,7 +870,16 @@ describe("Ghidra relationship coverage", () => {
         Promise.resolve(
           ok(
             operation === "procedure_callees"
-              ? { value: ["0x2000"], limitations: [] }
+              ? {
+                  value: ["0x2000"],
+                  limitations: [],
+                  relationship_coverage: {
+                    status: "complete",
+                    diagnostics: [
+                      "Only resolved Ghidra call references are returned; unresolved computed or indirect calls remain unknown, while function classifications distinguish thunks and externals.",
+                    ],
+                  },
+                }
               : { value: [], limitations: [] },
           ),
         ),
@@ -1818,6 +1833,8 @@ describe("compatible Ghidra builds", () => {
         readText: () =>
           "application.version=12.1.2\napplication.java.min=21\napplication.java.max=\n",
         probeJava: () => ({
+          osArch: "amd64",
+          osName: "Linux",
           version: "27",
           major: 27,
           home: "/usr/lib/jvm/java-27-openjdk",

src/ghidra/GhidraProviderCapabilities.ts

@@ -2,7 +2,6 @@ import type {
   CapabilityDescriptor,
   ProviderIdentity,
 } from "../application/AnalysisProvider.js";
-import type { RelationshipCoverage } from "../domain/relationshipCoverage.js";
 import {
   hasWindowsNativeAuthority,
   windowsNativeAuthorityUnavailableReason,
@@ -44,22 +43,6 @@ const stringInventoryLimitation =
 const searchLimitation =
   "Regex mode uses Java Pattern semantics. Matcher or compiler stack exhaustion returns a resource constraint without closing the session; literal mode avoids regex recursion and returns complete matching values.";
 
-const resolvedCallReferenceLimitation =
-  "Only resolved Ghidra call references are returned; unresolved computed or indirect calls remain unknown, while function classifications distinguish thunks and externals.";
-
-/** Relationship-only caveats belong to each observed caller/callee result. */
-export const relationshipCoverageFor = (
-  operation: string,
-): RelationshipCoverage | undefined =>
-  operation === "procedure_callers" ||
-  operation === "procedure_callees" ||
-  operation === "analyze_function"
-    ? {
-        status: "complete",
-        diagnostics: [resolvedCallReferenceLimitation],
-      }
-    : undefined;
-
 /** Limitation text for one admitted operation, including the common base. */
 export const limitationsFor = (operation: string): readonly string[] => {
   const common = [

src/ghidra/GhidraProviderClient.ts

@@ -34,6 +34,7 @@ import {
 } from "../domain/analysisErrorCore.js";
 import type { AnalysisError } from "../domain/analysisErrorBase.js";
 import type { EvidenceLocation } from "../domain/evidence.js";
+import type { RelationshipCoverage } from "../domain/relationshipCoverage.js";
 import { jsonValueSchema, type JsonValue } from "../domain/jsonValue.js";
 import { ProviderAdapterError } from "../domain/providerAdapterError.js";
 import { err, ok, type Result } from "../domain/result.js";
@@ -86,7 +87,6 @@ import {
   healthLimitations,
   windowsP0Limitations,
   limitationsFor,
-  relationshipCoverageFor,
 } from "./GhidraProviderCapabilities.js";
 import type { GhidraSessionError } from "./GhidraSessionError.js";
 import {
@@ -733,8 +733,8 @@ export const createGhidraProviderClient = (input: {
     rawResult: JsonValue,
     observationLimitations: readonly string[] = [],
     locations: readonly EvidenceLocation[] = [],
+    relationshipCoverage?: RelationshipCoverage,
   ) => {
-    const relationshipCoverage = relationshipCoverageFor(operation);
     return createAnalysisExecution(normalized, committedProfile.provider, {
       rawResult,
       locations,
@@ -838,12 +838,14 @@ export const createGhidraProviderClient = (input: {
       let normalized: JsonValue;
       let observationLimitations: readonly string[] = [];
       let observationLocations: readonly EvidenceLocation[] = [];
+      let relationshipCoverage: RelationshipCoverage | undefined;
       if (isGhidraFunctionOperation(operation)) {
         const result = parseGhidraFunctionResult(operation, called.value);
         if (!result.ok) return result;
         normalized = result.value.value;
         observationLimitations = result.value.limitations;
         observationLocations = result.value.locations ?? [];
+        relationshipCoverage = result.value.relationshipCoverage;
       } else {
         const result = parseGhidraInventoryResult(operation, called.value);
         if (!result.ok) return result;
@@ -939,6 +941,7 @@ export const createGhidraProviderClient = (input: {
           called.value,
           observationLimitations,
           observationLocations,
+          relationshipCoverage,
         ),
       );
     },

src/ghidra/GhidraSnapshotCache.test.ts

@@ -11,6 +11,7 @@ import { silentLogger } from "../logger.js";
 import { GhidraProvider } from "./GhidraProvider.js";
 import { GhidraSessionError } from "./GhidraSessionError.js";
 import { GHIDRA_SESSION_CAPABILITIES } from "./GhidraSessionValues.js";
+import type { RelationshipCoverage } from "../domain/relationshipCoverage.js";
 
 const TARGET: BinaryTarget = {
   path: "/tmp/ghidra-cache-fixture",
@@ -23,7 +24,7 @@ const TARGET: BinaryTarget = {
 
 // Exercise the real provider descriptors, profile, input/output projection and
 // session cache; only the installed Ghidra process is replaced at its seam.
-const fixture = (version = "12.1.4") => {
+const fixture = (version = "12.1.4", coverage?: RelationshipCoverage) => {
   const config = parseConfig({ GHIDRA_INSTALL_DIR: "/opt/ghidra" });
   if (!config.ok) throw config.error;
   const calls: string[] = [];
@@ -43,6 +44,8 @@ const fixture = (version = "12.1.4") => {
         `application.version=${version}\napplication.java.min=21\n`,
       executable: () => true,
       probeJava: () => ({
+        osArch: "amd64",
+        osName: "Linux",
         version: "21.0.11",
         major: 21,
         home: "/usr/lib/jvm/jdk-21",
@@ -111,7 +114,13 @@ const fixture = (version = "12.1.4") => {
         return ok(
           operation === "procedure_pseudo_code" ||
             operation === "analyze_function"
-            ? { value, limitations: [] }
+            ? {
+                value,
+                limitations: [],
+                ...(operation === "analyze_function" && coverage !== undefined
+                  ? { relationship_coverage: coverage }
+                  : {}),
+              }
             : value,
         );
       },
@@ -131,42 +140,119 @@ const open = async (session: ReturnType<typeof fixture>["session"]) => {
   expect((await session.openResolvedTarget(preview.value)).ok).toBe(true);
 };
 
-describe("Ghidra snapshot cache", () => {
-  it("refuses snapshots whose profile predates typed incoming references", async () => {
-    const initial = fixture();
-    await open(initial.session);
-    const snapshot = initial.session.exportAnalysisSnapshot();
-    if (!snapshot.ok) throw snapshot.error;
-    await initial.session.close();
-    const profile = snapshot.value.binding.analysis_profile;
-    expect(profile.parameters.instruction_references).toBe(
-      "exact-address-incoming-v1",
-    );
-    const legacy = {
-      ...snapshot.value,
-      binding: {
-        ...snapshot.value.binding,
-        analysis_profile: createAnalysisProfile(
-          profile.provider,
-          Object.fromEntries(
-            Object.entries(profile.parameters).filter(
-              ([key]) => key !== "instruction_references",
-            ),
-          ),
-        ),
-      },
-    };
-    const replay = fixture();
-    const imported = replay.session.importAnalysisSnapshot(legacy);
-    if (!imported.ok) throw imported.error;
-    expect(await replay.session.previewTarget(TARGET)).toMatchObject({
-      ok: false,
-      error: { _tag: "EvidenceIntegrityError" },
-    });
-    expect(replay.calls).toEqual([]);
-    await replay.session.close();
-  });
+describe("Ghidra relationship coverage replay", () => {
+  it.each([
+    undefined,
+    { status: "complete", diagnostics: ["Resolved static references only."] },
+    { status: "partial", limitations: ["Instruction coverage was truncated."] },
+    { status: "unknown", reason: "Relationship inventory was unavailable." },
+    {
+      status: "partial",
+      limitations: ["Missing callers."],
+      limited_directions: ["callers"],
+    },
+  ] satisfies (RelationshipCoverage | undefined)[])(
+    "preserves relationship coverage %j through live execution, cache and snapshot replay",
+    async (coverage) => {
+      const initial = fixture("12.1.4", coverage);
+      await open(initial.session);
+      const parameters = { procedure: "0x1000" };
+      for (let i = 0; i < 2; i++) {
+        const execution = await initial.session.execute(
+          "analyze_function",
+          parameters,
+        );
+        if (!execution.ok) throw execution.error;
+        expect(execution.value.relationshipCoverage).toEqual(coverage);
+      }
+      expect(initial.calls).toEqual(["analyze_function"]);
+      const snapshot = initial.session.exportAnalysisSnapshot();
+      if (!snapshot.ok) throw snapshot.error;
+      await initial.session.close();
+      const replay = fixture();
+      expect(replay.session.importAnalysisSnapshot(snapshot.value).ok).toBe(
+        true,
+      );
+      await open(replay.session);
+      const execution = await replay.session.execute(
+        "analyze_function",
+        parameters,
+      );
+      if (!execution.ok) throw execution.error;
+      expect(execution.value.relationshipCoverage ?? undefined).toEqual(
+        coverage,
+      );
+      expect(replay.calls).toEqual([]);
+      await replay.session.close();
+    },
+  );
+});
 
+describe("Ghidra snapshot profile admission", () => {
+  it.each([
+    {
+      parameter: "instruction_references",
+      current: "exact-address-incoming-v1",
+      legacy: undefined,
+    },
+    {
+      parameter: "call_relationship_coverage",
+      current: "function-body-call-coverage-v5",
+      legacy: "resolved-call-reference-diagnostics-v1",
+    },
+    {
+      parameter: "call_relationship_coverage",
+      current: "function-body-call-coverage-v5",
+      legacy: "decoded-call-target-coverage-v2",
+    },
+    {
+      parameter: "call_relationship_coverage",
+      current: "function-body-call-coverage-v5",
+      legacy: "decoded-call-target-coverage-v3",
+    },
+    {
+      parameter: "call_relationship_coverage",
+      current: "function-body-call-coverage-v5",
+      legacy: "function-body-call-coverage-v4",
+    },
+  ])(
+    "refuses snapshots with outdated $parameter semantics",
+    async ({ parameter, current, legacy: prior }) => {
+      const initial = fixture();
+      await open(initial.session);
+      const snapshot = initial.session.exportAnalysisSnapshot();
+      if (!snapshot.ok) throw snapshot.error;
+      await initial.session.close();
+      const profile = snapshot.value.binding.analysis_profile;
+      expect(profile.parameters[parameter]).toBe(current);
+      const legacy = {
+        ...snapshot.value,
+        binding: {
+          ...snapshot.value.binding,
+          analysis_profile: createAnalysisProfile(profile.provider, {
+            ...Object.fromEntries(
+              Object.entries(profile.parameters).filter(
+                ([key]) => key !== parameter,
+              ),
+            ),
+            ...(prior === undefined ? {} : { [parameter]: prior }),
+          }),
+        },
+      };
+      const replay = fixture();
+      const imported = replay.session.importAnalysisSnapshot(legacy);
+      if (!imported.ok) throw imported.error;
+      expect(await replay.session.previewTarget(TARGET)).toMatchObject({
+        ok: false,
+        error: { _tag: "EvidenceIntegrityError" },
+      });
+      expect(replay.calls).toEqual([]);
+      await replay.session.close();
+    },
+  );
+});
+
+describe("Ghidra snapshot cache", () => {
   it.each([
     { operation: "analyze_function", parameters: { procedure: "0x1000" } },
     {

src/reference/ReferenceSourceReaderEntries.ts

@@ -25,7 +25,7 @@ import {
 import type {
   PendingDirectory,
   ReferenceSourceEntry,
-  ReferenceSourceEntryKind,
+  ReferenceSourceExclusionKind,
   ReferenceSourceResult,
   TraversalState,
 } from "./ReferenceSourceReaderTypes.js";
@@ -201,6 +201,13 @@ const processEntry = async (
   const metadata = await readMetadata(absolute);
   if (isAborted(state.signal)) return { ok: false, error: cancelled() };
   if (!metadata.ok) {
+    const excluded = applyExclusion(state.shouldExclude, path, "unknown");
+    if (!excluded.ok)
+      return {
+        ok: false,
+        error: failure("io", "Reference source exclusion check failed"),
+      };
+    if (excluded.value) return { ok: true, value: undefined };
     state.entries.push(entryFailure(path, "unknown", "io", metadata.message));
     return { ok: true, value: undefined };
   }
@@ -371,10 +378,10 @@ const readSymlinkTarget = async (
 
 const applyExclusion = (
   shouldExclude:
-    | ((path: string, kind: ReferenceSourceEntryKind) => boolean)
+    | ((path: string, kind: ReferenceSourceExclusionKind) => boolean)
     | undefined,
   path: string,
-  kind: ReferenceSourceEntryKind,
+  kind: ReferenceSourceExclusionKind,
 ): { readonly ok: true; readonly value: boolean } | { readonly ok: false } => {
   try {
     return { ok: true, value: shouldExclude?.(path, kind) === true };

src/reference/ReferenceSourceReaderErrors.ts

@@ -29,6 +29,9 @@ const FILESYSTEM_ERROR_CODES = new Set([
   "EISDIR",
   "ELOOP",
   "EMFILE",
+  // A traversed child can exceed the platform's absolute path limit even
+  // though the selected root and every component are valid.
+  "ENAMETOOLONG",
   "ENFILE",
   "ENOENT",
   "ENOTDIR",
@@ -44,6 +47,8 @@ export const filesystemFailureDetail = (
 ): string | undefined => {
   if (!(cause instanceof Error)) return undefined;
   const code: unknown = Reflect.get(cause, "code");
+  if (code === "ENAMETOOLONG")
+    return `${operation}: ENAMETOOLONG (entry path exceeds the operating system path limit)`;
   return typeof code === "string" && FILESYSTEM_ERROR_CODES.has(code)
     ? `${operation}: ${cause.message}`
     : undefined;

src/reference/ReferenceSourceReaderTypes.ts

@@ -10,11 +10,17 @@ export type ReferenceSourceEntryKind =
   | "symlink"
   | "other";
 
+/**
+ * Kind offered to exclusion predicates. `unknown` marks an entry whose
+ * metadata could not be read, so its concrete kind cannot be claimed.
+ */
+export type ReferenceSourceExclusionKind = ReferenceSourceEntryKind | "unknown";
+
 export interface ReferenceSourceReaderOptions {
   readonly signal?: AbortSignal;
   readonly shouldExclude?: (
     path: string,
-    kind: ReferenceSourceEntryKind,
+    kind: ReferenceSourceExclusionKind,
   ) => boolean;
 }
 
@@ -84,7 +90,7 @@ export type TraversalState = {
   readonly signal?: AbortSignal;
   readonly shouldExclude?: (
     path: string,
-    kind: ReferenceSourceEntryKind,
+    kind: ReferenceSourceExclusionKind,
   ) => boolean;
   readonly entries: ReferenceSourceEntry[];
   readonly pending: PendingDirectory[];

tests/acceptance/applications/electronInvalidPaths.test.ts

@@ -1,4 +1,4 @@
-import { writeFile } from "node:fs/promises";
+import { chmod, mkdir, writeFile } from "node:fs/promises";
 import { join } from "node:path";
 
 import { expect } from "vitest";
@@ -68,6 +68,130 @@ cliTest(
   },
 );
 
+const isWindows = process.platform === "win32";
+
+const errorBody = (result: {
+  readonly content: readonly { readonly type: string }[];
+}) => {
+  const content = result.content.find((item) => item.type === "text");
+  if (content?.type !== "text" || !("text" in content))
+    throw new Error("Missing error response");
+  return JSON.parse(String(content.text));
+};
+
+const createElectronApplication = async (root: string) => {
+  const application = join(root, "app");
+  await mkdir(application);
+  await writeFile(
+    join(application, "package.json"),
+    JSON.stringify({ name: "fixture", main: "main.js" }),
+  );
+  await writeFile(join(application, "main.js"), "");
+  return application;
+};
+
+cliTest.skipIf(isWindows)(
+  "rejects a non-executable Electron executable_path before launch through CLI and MCP",
+  async ({ cli }) => {
+    const root = await createTestTempDirectory("rea-electron-not-executable-");
+    const application = await createElectronApplication(root);
+    const executable = join(root, "not-an-executable.txt");
+    await writeFile(executable, "plain text");
+    await chmod(executable, 0o644);
+    const request = {
+      executable_path: executable,
+      application_path: application,
+      actions: [],
+    };
+    const requestPath = join(root, "input.json");
+    await writeFile(requestPath, JSON.stringify(request));
+
+    const response = await cli.run({
+      arguments: ["capture-electron-scenario", requestPath, "--format", "json"],
+      environment: { REA_LOG_LEVEL: "silent" },
+    });
+    expect(response.exitCode).toBe(1);
+    expect(response.json).toMatchObject({
+      code: "invalid_request",
+      details: {
+        issues: [{ path: ["executable_path"], reason: "invalid_value" }],
+      },
+    });
+
+    const { call } = await connectLocalToolsMcp();
+    const result = await call("capture_electron_scenario", request);
+    expect(result.isError).toBe(true);
+    expect(errorBody(result)).toMatchObject({
+      error: {
+        code: "invalid_request",
+        details: {
+          issues: [{ path: ["executable_path"], reason: "invalid_value" }],
+        },
+      },
+    });
+    const session = await call("binary_session", {});
+    expect(session.isError, JSON.stringify(session)).not.toBe(true);
+  },
+);
+
+cliTest.skipIf(isWindows)(
+  "returns a typed failure when an executable exits before Electron starts and keeps the MCP server and its Evidence",
+  async ({ cli }) => {
+    const root = await createTestTempDirectory("rea-electron-early-exit-");
+    const application = await createElectronApplication(root);
+    const executable = join(root, "exits-immediately");
+    await writeFile(executable, "#!/bin/sh\nexit 0\n");
+    await chmod(executable, 0o755);
+    const request = {
+      executable_path: executable,
+      application_path: application,
+      actions: [],
+    };
+    const requestPath = join(root, "input.json");
+    await writeFile(requestPath, JSON.stringify(request));
+
+    const response = await cli.run({
+      arguments: ["capture-electron-scenario", requestPath, "--format", "json"],
+      environment: { REA_LOG_LEVEL: "silent" },
+    });
+    expect(response.exitCode).toBe(1);
+    expect(response.json).toMatchObject({
+      code: "execution_failure",
+      details: { operation: "capture_electron_scenario" },
+    });
+    expect(response.stdout).toContain("Process failed to launch");
+
+    const { call } = await connectLocalToolsMcp();
+    const analysis = await call("analyze_javascript_application", {
+      input_path: application,
+    });
+    expect(analysis.isError, JSON.stringify(analysis)).not.toBe(true);
+    const retained = async () => {
+      const bundle = await call("get_evidence_bundle", {});
+      expect(bundle.isError, JSON.stringify(bundle)).not.toBe(true);
+      const structured = bundle.structuredContent as {
+        result: { records: { evidence_id: string }[] };
+      };
+      return structured.result.records.map((record) => record.evidence_id);
+    };
+    const before = await retained();
+    expect(before).toHaveLength(1);
+
+    const result = await call("capture_electron_scenario", request);
+    expect(result.isError).toBe(true);
+    expect(errorBody(result)).toMatchObject({
+      error: {
+        code: "execution_failure",
+        details: { operation: "capture_electron_scenario" },
+      },
+    });
+    const session = await call("binary_session", {});
+    expect(session.isError, JSON.stringify(session)).not.toBe(true);
+    expect(await retained()).toEqual(before);
+  },
+  180_000,
+);
+
 cliTest(
   "rejects a file URL path field without resolving an invented local path",
   async ({ cli }) => {

tests/boundary/android/JadxAnalysis.test.ts

@@ -279,26 +279,44 @@ it("preserves bounded instruction coverage separately from using-node coverage",
   });
 });
 
-it("rejects malformed method descriptors at the Android adapter boundary", async () => {
-  const invalidSummary = {
-    ...summary,
-    methods: summary.methods.map((method) => ({
-      ...method,
-      dex_descriptor: "not-a-dex-descriptor",
-    })),
-  };
-  await expect(
-    analyzeJadxRequest(
-      {
-        json: () => Promise.resolve(invalidSummary),
-        text: () => Promise.reject(new Error("unexpected text call")),
+it.each([
+  "not-a-dex-descriptor",
+  "(Lbad(name;)V",
+  "(Lbad)name;)V",
+  "()Lbad(name;",
+  "()Lbad)name;",
+])(
+  "rejects malformed DEX prototype %s at the adapter boundary",
+  async (descriptor) => {
+    const invalidSummary = {
+      ...summary,
+      methods: summary.methods.map((method) => ({
+        ...method,
+        dex_descriptor: descriptor,
+      })),
+    };
+    await expect(
+      analyzeJadxRequest(
+        {
+          json: () => Promise.resolve(invalidSummary),
+          text: () => Promise.reject(new Error("unexpected text call")),
+        },
+        {
+          operation: "inspect_android_class",
+          input: { path: "/fixture.apk", class_name: "fixture.Target" },
+        },
+        {} as never,
+        engine,
+      ),
+    ).rejects.toMatchObject({
+      _tag: "AnalysisOutputError",
+      cause: {
+        issues: expect.arrayContaining([
+          expect.objectContaining({
+            path: ["methods", 0, "dex_descriptor"],
+          }),
+        ]),
       },
-      {
-        operation: "inspect_android_class",
-        input: { path: "/fixture.apk", class_name: "fixture.Target" },
-      },
-      {} as never,
-      engine,
-    ),
-  ).rejects.toThrow();
-});
+    });
+  },
+);

tests/boundary/cli/javascriptIntegrityPolicyCli.test.ts

@@ -15,6 +15,19 @@ const run = async (arguments_: readonly string[]): Promise<unknown> => {
   return JSON.parse(stdout);
 };
 
+const runFailure = async (arguments_: readonly string[]): Promise<unknown> => {
+  try {
+    await run(arguments_);
+  } catch (cause: unknown) {
+    if (typeof cause !== "object" || cause === null || !("stdout" in cause))
+      throw cause;
+    const stdout = cause.stdout;
+    if (typeof stdout !== "string") throw cause;
+    return JSON.parse(stdout);
+  }
+  throw new Error("Expected the CLI command to fail");
+};
+
 it.each(["analyze-javascript-application", "analyze"])(
   "%s carries the integrity policy into shared JavaScript analysis",
   async (command) => {
@@ -46,3 +59,48 @@ it("rejects the JavaScript integrity policy on binary-only inspection", async ()
     stdout: expect.stringContaining("Unknown flag: --integrityPolicy"),
   });
 });
+
+it.each(["fail", "record-and-continue"] as const)(
+  "rejects the explicitly selected %s integrity policy on a binary analyze target",
+  async (policy) => {
+    const failure = await runFailure([
+      "analyze",
+      "unused.bin",
+      "--integrity-policy",
+      policy,
+    ]);
+    expect(failure).toMatchObject({
+      code: "invalid_request",
+      details: {
+        issues: [
+          {
+            path: ["integrity_policy"],
+            reason: "invalid_value",
+            message:
+              "An integrity policy requires the static JavaScript ASAR/directory analysis lane; binary_overview accepts no input.",
+          },
+        ],
+      },
+    });
+  },
+);
+
+it("still routes a binary analyze target without an integrity policy", async () => {
+  await expect(run(["analyze", "unused.bin"])).rejects.toMatchObject({
+    code: 1,
+    stdout: expect.stringContaining("target does not exist"),
+  });
+});
+
+it("advertises the optional integrity policy without an undefined union", async () => {
+  const schema = (await run(["analyze", "--schema"])) as {
+    options?: { properties?: { integrityPolicy?: unknown } };
+  };
+  const policy = schema.options?.properties?.integrityPolicy;
+  expect(policy).toMatchObject({
+    type: "string",
+    enum: ["fail", "record-and-continue"],
+    description: "Behavior when declared application integrity does not match",
+  });
+  expect(JSON.stringify(policy)).not.toContain("undefined");
+});

tests/boundary/filesystem/clientLifecycle.test.ts

@@ -67,6 +67,7 @@ describe("client configuration filesystem lifecycle", () => {
       "kimi",
       "vscode",
       "trae",
+      "workbuddy",
       "grok_build",
       "omp",
       "pi",

tests/boundary/filesystem/ghidraPspExtension.test.ts

@@ -55,6 +55,8 @@ const host: GhidraInstallationHost = {
   readText: () => "application.version=12.1.3\napplication.java.min=21\n",
   executable: () => true,
   probeJava: () => ({
+    osArch: "amd64",
+    osName: "Linux",
     version: "21.0.12",
     major: 21,
     home: "/jdk-21",

tests/boundary/filesystem/referenceSourceFailureDetails.test.ts

@@ -133,3 +133,88 @@ describe("reference import native entry failure details", () => {
     ).toMatchObject({ kind: "file", content_state: "hashed", limitations: [] });
   });
 });
+
+describe("reference import paths beyond the platform limit", () => {
+  it.skipIf(process.platform === "win32")(
+    "reports an entry beyond the absolute path limit as an I/O failure",
+    async () => {
+      const root = await createTestTempDirectory("rea-import-deep-path-");
+      await writeFile(join(root, "kept.txt"), "k");
+      // Relative creation lets the tree exceed PATH_MAX (1024 on macOS, 4096
+      // on Linux) while each 200-byte component stays below NAME_MAX.
+      const deepTree = (action: "create" | "remove") =>
+        promisify(execFile)(process.execPath, [
+          "-e",
+          `const fs = require("node:fs");
+          const names = Array.from({ length: 24 }, (_, i) => "d" + String(i).padStart(2, "0") + "x".repeat(197));
+          process.chdir(${JSON.stringify(root)});
+          if (${JSON.stringify(action)} === "create") {
+            for (const name of names) { fs.mkdirSync(name); process.chdir(name); }
+            fs.writeFileSync("deep.txt", "d");
+          } else {
+            for (const name of names) process.chdir(name);
+            fs.rmSync("deep.txt");
+            for (const name of [...names].reverse()) { process.chdir(".."); fs.rmdirSync(name); }
+          }`,
+        ]);
+      await deepTree("create");
+      try {
+        const read = await readReferenceSource(root);
+        if (!read.ok) throw new Error(read.error.message);
+        expect(read.value.entries).toContainEqual(
+          expect.objectContaining({ path: "kept.txt", status: "read" }),
+        );
+        const failed = read.value.entries.find(
+          (entry) => entry.status === "failed",
+        );
+        expect(failed).toMatchObject({
+          status: "failed",
+          code: "io",
+          message: expect.stringContaining("ENAMETOOLONG"),
+        });
+        const filteredRead = await readReferenceSource(root, {
+          shouldExclude: (path, kind) =>
+            path === failed?.path && kind === "directory",
+        });
+        if (!filteredRead.ok) throw new Error(filteredRead.error.message);
+        expect(
+          filteredRead.value.entries.find(
+            (entry) => entry.path === failed?.path,
+          ),
+        ).toMatchObject({ status: "failed", kind: "unknown", code: "io" });
+        const imported = await importTree(root);
+        if (!imported.ok) throw new Error(imported.error.message);
+        expect(imported.value.entries).toContainEqual(
+          expect.objectContaining({
+            path: "kept.txt",
+            content_state: "hashed",
+          }),
+        );
+        const deep = imported.value.entries.find(
+          (entry) => entry.path === failed?.path,
+        );
+        expect(deep?.limitations.join(" ")).toContain(
+          failed?.status === "failed" ? failed.message : "missing failure",
+        );
+        // A directory-only secret rule still applies when the kind is unknown.
+        const secretPattern = `${failed?.path ?? "missing"}/`;
+        const secret = await importReferenceSource({
+          root,
+          caller: "native-entry-failure-detail-test",
+          policy: { secretPatterns: [secretPattern] },
+        });
+        if (!secret.ok) throw new Error(secret.error.message);
+        expect(
+          secret.value.entries.some(({ path }) => path === failed?.path),
+        ).toBe(false);
+        expect(secret.value.exclusions).toContainEqual({
+          path: failed?.path,
+          reason: "configured-secret",
+          pattern: secretPattern,
+        });
+      } finally {
+        await deepTree("remove");
+      }
+    },
+  );
+});

tests/boundary/filesystem/workbuddyClientConfiguration.test.ts

@@ -0,0 +1,159 @@
+import { mkdir, readFile, writeFile } from "node:fs/promises";
+import { join } from "node:path";
+
+import { afterEach, beforeEach, describe, expect, it, vi } from "vitest";
+
+import { readClientRegistrationStatuses } from "../../../src/application/ClientRegistrationStatus.js";
+import { npxRegistrationCommand } from "../../../src/application/ClientRegistrationIdentity.js";
+import { configureClientConfiguration } from "../../../src/application/SetupClientConfiguration.js";
+import { skillDestinations } from "../../../src/application/SetupSkill.js";
+import { supportedClients } from "../../../src/application/SupportedClients.js";
+import { systemUninstallHost } from "../../../src/application/Uninstall.js";
+import { createTestTempDirectory } from "../../fixtures/temporaryDirectory.js";
+import { clearClientLocationEnvironment } from "../../fixtures/clientEnvironment.js";
+
+/**
+ * The registration command setup writes on the host running the tests. Windows
+ * wraps it in `cmd.exe /d /c`, so the expected entry follows the host too.
+ */
+const command = npxRegistrationCommand(process.platform);
+
+beforeEach(clearClientLocationEnvironment);
+afterEach(() => vi.unstubAllEnvs());
+
+const workbuddyPath = (
+  home: string,
+  platform: NodeJS.Platform = process.platform,
+  env: Parameters<typeof supportedClients>[2] = {},
+) =>
+  supportedClients(home, platform, env).find(
+    ({ name }) => name === "workbuddy",
+  );
+
+describe("WorkBuddy configuration paths", () => {
+  it("resolves the global mcp.json under the home root", () => {
+    expect(workbuddyPath("/home/a")?.configPath).toBe(
+      join("/home/a", ".workbuddy", "mcp.json"),
+    );
+    expect(workbuddyPath("/Users/a")?.markerPath).toBe(
+      join("/Users/a", ".workbuddy"),
+    );
+    expect(workbuddyPath("C:\\Users\\a", "win32")?.configPath).toBe(
+      join("C:\\Users\\a", ".workbuddy", "mcp.json"),
+    );
+  });
+
+  it("resolves the registration format as the plain mcpServers JSON dialect", () => {
+    expect(workbuddyPath("/home/a")?.format).toBe("json");
+  });
+
+  it("resolves the personal skills directory under the home root", () => {
+    expect(
+      skillDestinations("/home/a", ["workbuddy"]).map(({ path }) => path),
+    ).toEqual([
+      join("/home/a", ".workbuddy", "skills", "reverse-engineer-anything"),
+    ]);
+    expect(
+      skillDestinations("C:\\Users\\a", ["workbuddy"], {}, "win32").map(
+        ({ path }) => path,
+      ),
+    ).toEqual([
+      join("C:\\Users\\a", ".workbuddy", "skills", "reverse-engineer-anything"),
+    ]);
+  });
+});
+
+describe("WorkBuddy JSON registration", () => {
+  const workbuddyClient = async () => {
+    const home = await createTestTempDirectory("rea-workbuddy-");
+    const client = workbuddyPath(home, process.platform);
+    if (client?.markerPath === undefined)
+      throw new Error("missing WorkBuddy client");
+    await mkdir(client.markerPath, { recursive: true });
+    return { home, client };
+  };
+
+  it("upserts rea into mcpServers while preserving unrelated settings", async () => {
+    const { home, client } = await workbuddyClient();
+    await writeFile(
+      client.configPath,
+      `{
+  "mcpServers": {
+    "other": { "command": "other-server" }
+  }
+}`,
+    );
+
+    expect(
+      (await configureClientConfiguration(client, {}, command)).status,
+    ).toBe("configured");
+    const parsed = JSON.parse(await readFile(client.configPath, "utf8"));
+    expect(parsed.mcpServers.other).toEqual({ command: "other-server" });
+    expect(parsed.mcpServers.rea).toEqual({
+      command: command[0],
+      args: command.slice(1),
+    });
+
+    expect(await configureClientConfiguration(client, {}, command)).toEqual({
+      status: "unchanged",
+    });
+    expect(
+      (
+        await readClientRegistrationStatuses(home, undefined, {
+          platform: process.platform,
+          environment: {},
+        })
+      ).find(({ client }) => client === "workbuddy"),
+    ).toMatchObject({ state: "aligned", command });
+  });
+
+  it("creates the mcpServers table in an existing mcp.json without servers", async () => {
+    const { client } = await workbuddyClient();
+    await writeFile(
+      client.configPath,
+      JSON.stringify({ unrelated: { setting: true } }, null, 2),
+    );
+    expect(
+      (await configureClientConfiguration(client, {}, command)).status,
+    ).toBe("configured");
+    const parsed = JSON.parse(await readFile(client.configPath, "utf8"));
+    expect(parsed.unrelated).toEqual({ setting: true });
+    expect(parsed.mcpServers.rea).toEqual({
+      command: command[0],
+      args: command.slice(1),
+    });
+  });
+
+  it("registers into an empty mcp.json", async () => {
+    const { client } = await workbuddyClient();
+    await writeFile(client.configPath, "");
+    expect(
+      (await configureClientConfiguration(client, {}, command)).status,
+    ).toBe("configured");
+    const parsed = JSON.parse(await readFile(client.configPath, "utf8"));
+    expect(parsed.mcpServers.rea).toEqual({
+      command: command[0],
+      args: command.slice(1),
+    });
+  });
+
+  it("removes only the rea entry on uninstall", async () => {
+    const { home, client } = await workbuddyClient();
+    await writeFile(
+      client.configPath,
+      JSON.stringify(
+        { mcpServers: { other: { command: "other-server" } } },
+        null,
+        2,
+      ),
+    );
+    await configureClientConfiguration(client, {}, command);
+
+    expect((await systemUninstallHost(home).removeClient(client)).status).toBe(
+      "removed",
+    );
+    const parsed = JSON.parse(await readFile(client.configPath, "utf8"));
+    expect(parsed.mcpServers.other).toEqual({ command: "other-server" });
+    expect(parsed.mcpServers.rea).toBeUndefined();
+  });
+});

tests/boundary/filesystem/zcodeClientConfiguration.test.ts

@@ -13,7 +13,10 @@ import {
 } from "../../../src/application/SetupClientConfiguration.js";
 import { skillDestinations } from "../../../src/application/SetupSkill.js";
 import { supportedClients } from "../../../src/application/SupportedClients.js";
-import { systemUninstallHost } from "../../../src/application/Uninstall.js";
+import {
+  runUninstall,
+  systemUninstallHost,
+} from "../../../src/application/Uninstall.js";
 import { createTestTempDirectory } from "../../fixtures/temporaryDirectory.js";
 import { clearClientLocationEnvironment } from "../../fixtures/clientEnvironment.js";
 
@@ -257,6 +260,91 @@ describe("ZCode .agents fallback preservation", () => {
   });
 });
 
+describe("ZCode fallback uninstall", () => {
+  const owned = { command: command[0], args: command.slice(1) };
+  const writeFallback = async (home: string, servers: object) => {
+    await mkdir(join(home, ".agents"), { recursive: true });
+    const text = `${JSON.stringify({ ui: { keep: true }, mcpServers: servers }, null, 2)}\n`;
+    await writeFile(fallbackPath(home), text);
+    return text;
+  };
+
+  it.each(["comment", "trailing-comma", "bom"])(
+    "fails closed on strict fallback syntax: %s",
+    async (mode) => {
+      const { home } = await zcodeClient();
+      const valid = await writeFallback(home, {
+        rea: owned,
+        other: { command: "other-server" },
+      });
+      const original =
+        mode === "comment"
+          ? `// unsupported comment\n${valid}`
+          : mode === "bom"
+            ? `\uFEFF${valid}`
+            : valid.replace(/\}\s*$/u, ",}");
+      await writeFile(fallbackPath(home), original);
+      const result = await runUninstall(false, systemUninstallHost(home));
+      expect(result.items).toContainEqual(
+        expect.objectContaining({ name: "zcode", status: "failed" }),
+      );
+      expect(await readFile(fallbackPath(home), "utf8")).toBe(original);
+      await expect(
+        readFile(`${fallbackPath(home)}.rea.backup`),
+      ).rejects.toMatchObject({ code: "ENOENT" });
+    },
+  );
+
+  it("removes the REA-owned fallback entry with the native registration", async () => {
+    const { home, client } = await zcodeClient();
+    await writeFile(
+      client.configPath,
+      JSON.stringify({ mcp: { servers: { rea: owned } } }),
+    );
+    const original = await writeFallback(home, {
+      rea: owned,
+      other: { command: "other-server" },
+    });
+
+    const result = await runUninstall(false, systemUninstallHost(home));
+
+    expect(result.status).toBe("complete");
+    expect(result.items.find(({ name }) => name === "zcode")?.status).toBe(
+      "removed",
+    );
+    const native = JSON.parse(await readFile(client.configPath, "utf8"));
+    expect(native.mcp.servers).toEqual({});
+    const fallback = JSON.parse(await readFile(fallbackPath(home), "utf8"));
+    expect(fallback).toEqual({
+      ui: { keep: true },
+      mcpServers: { other: { command: "other-server" } },
+    });
+    expect(await readFile(`${fallbackPath(home)}.rea.backup`, "utf8")).toBe(
+      original,
+    );
+  });
+
+  it("removes a fallback-only REA entry and keeps a foreign rea entry", async () => {
+    for (const [servers, expected] of [
+      [{ rea: owned }, {}],
+      [
+        { rea: { command: "someone-else" } },
+        { rea: { command: "someone-else" } },
+      ],
+    ] as const) {
+      const { home } = await zcodeClient();
+      await writeFallback(home, servers);
+
+      expect(
+        (await runUninstall(false, systemUninstallHost(home))).status,
+      ).toBe("complete");
+      expect(
+        JSON.parse(await readFile(fallbackPath(home), "utf8")).mcpServers,
+      ).toEqual(expected);
+    }
+  });
+});
+
 describe("ZCode fallback admission", () => {
   it.each([{ PORT: 123 }, { REA_MCP_INPUT_SCHEMA_PROFILE: "unknown" }])(
     "refuses malformed fallback REA environment %j before native writes",

tests/boundary/mcp/functionCallDirectionsMcp.test.ts

@@ -0,0 +1,138 @@
+import { Client, InMemoryTransport } from "@modelcontextprotocol/client";
+import { Ajv2020 } from "ajv/dist/2020.js";
+import { expect, it } from "vitest";
+
+import { FUNCTION_COMPARISON_EXAMPLE } from "../../../src/contracts/functionComparisonExample.js";
+import { createEvidence } from "../../../src/domain/evidence.js";
+import { functionDossierSchema } from "../../../src/domain/hopperValues.js";
+import type { RelationshipCoverage } from "../../../src/domain/relationshipCoverage.js";
+import { createServer } from "../../../src/server/createServer.js";
+import { createTestBinarySession } from "../../fixtures/binarySession.js";
+
+const observe = (relationshipCoverage: RelationshipCoverage) => {
+  const template = FUNCTION_COMPARISON_EXAMPLE.left;
+  if (template.subject === null)
+    throw new Error("Expected artifact-bound fixture");
+  const dossier = functionDossierSchema.parse(template.normalized_result);
+  return createEvidence(
+    {
+      path: template.subject.local_path,
+      sha256: template.subject.digest.sha256,
+      format: template.subject.format,
+    },
+    template.provider,
+    {
+      operation: "analyze_function",
+      parameters: template.parameters,
+      result: { ...dossier, callees: [], unresolved_calls: [] },
+      confidence: template.confidence,
+      authority: template.authority,
+      relationshipCoverage,
+    },
+  );
+};
+
+it("preserves directional gaps through advertised schemas and public path reconstruction", async () => {
+  const session = createTestBinarySession(() => {
+    throw new Error("Offline call paths must not launch a provider");
+  });
+  const server = createServer({ kind: "session", session });
+  const client = new Client({ name: "function-call-directions", version: "1" });
+  const [clientTransport, serverTransport] =
+    InMemoryTransport.createLinkedPair();
+  try {
+    await server.connect(serverTransport);
+    await client.connect(clientTransport);
+    const advertised = (await client.listTools()).tools.find(
+      ({ name }) => name === "build_call_path",
+    );
+    if (advertised === undefined)
+      throw new Error("Missing build_call_path contract");
+    const ajv = new Ajv2020({ strict: false, validateFormats: false });
+    expect(ajv.validateSchema(advertised.inputSchema)).toBe(true);
+    const validate = ajv.compile(advertised.inputSchema);
+    for (const { directions, status, exhaustive } of [
+      {
+        directions: ["callers"] as ["callers"],
+        status: "not_found",
+        exhaustive: true,
+      },
+      {
+        directions: ["callees"] as ["callees"],
+        status: "unknown",
+        exhaustive: false,
+      },
+      {
+        directions: ["callers", "callees"] as ["callers", "callees"],
+        status: "unknown",
+        exhaustive: false,
+      },
+    ]) {
+      const limitation =
+        "An observed call reference is absent from the inventory.";
+      const coverage: RelationshipCoverage = {
+        status: "partial",
+        limitations: [limitation],
+        limited_directions: directions,
+      };
+      const observation = observe(coverage);
+      expect(session.recordEvidence(observation).ok).toBe(true);
+      const input = {
+        functions: [observation],
+        start: { address: "0x1000" },
+        goal: { address: "0x9999" },
+      };
+      expect(validate(input), JSON.stringify(validate.errors)).toBe(true);
+      for (const limited_directions of [
+        [],
+        ["callers", "callers"],
+        ["callees", "callees"],
+        ["callers", "callees", "callers"],
+        ["incoming"],
+      ])
+        expect(
+          validate({
+            ...input,
+            functions: [
+              {
+                ...observation,
+                relationship_coverage: {
+                  ...coverage,
+                  limited_directions,
+                },
+              },
+            ],
+          }),
+        ).toBe(false);
+      const result = await client.callTool({
+        name: "build_call_path",
+        arguments: input,
+      });
+      if (result.isError) throw new Error(JSON.stringify(result));
+      expect(result.structuredContent).toMatchObject({
+        normalized_result: {
+          status,
+          search_scope: { exhaustive },
+          limitations: expect.arrayContaining([limitation]),
+        },
+      });
+      const comparison = await client.callTool({
+        name: "compare_functions",
+        arguments: { left: observation, right: observation },
+      });
+      if (comparison.isError) throw new Error(JSON.stringify(comparison));
+      expect(comparison.structuredContent).toMatchObject({
+        normalized_result: {
+          dimensions: expect.arrayContaining([
+            expect.objectContaining({ dimension: "calls", status: "unknown" }),
+          ]),
+        },
+      });
+      // Each scenario owns its Evidence and residual-unknown ledger.
+      const closed = await session.close();
+      if (!closed.ok) throw closed.error;
+    }
+  } finally {
+    await Promise.allSettled([session.close(), client.close(), server.close()]);
+  }
+});

tests/boundary/mcp/ghidraEvidenceMcp.test.ts

@@ -15,9 +15,17 @@ import {
   type GhidraFunctionOperation,
 } from "../../../src/ghidra/GhidraFunctionValues.js";
 
-it.each([true, false])(
-  "compares observed empty Ghidra facets while preserving pseudocode availability (%s)",
-  async (pseudocodeAvailable) => {
+it.each([
+  { pseudocodeAvailable: true, reportsCoverage: true },
+  { pseudocodeAvailable: false, reportsCoverage: true },
+  { pseudocodeAvailable: true, reportsCoverage: false },
+  { pseudocodeAvailable: false, reportsCoverage: false },
+])(
+  "compares observed empty Ghidra facets with pseudocode=$pseudocodeAvailable and coverage=$reportsCoverage",
+  async ({ pseudocodeAvailable, reportsCoverage }) => {
+    const coverage = reportsCoverage
+      ? { status: "complete" as const }
+      : undefined;
     const dossier = functionDossierSchema.parse(ghidraFunctionDossier());
     Object.assign(dossier, {
       comments: [],
@@ -47,7 +55,13 @@ it.each([true, false])(
         if (operation !== "analyze_function")
           throw new Error(`Unexpected operation: ${operation}`);
         return Promise.resolve(
-          ok({ value: jsonValueSchema.parse(dossier), limitations: [] }),
+          ok({
+            value: jsonValueSchema.parse(dossier),
+            limitations: [],
+            ...(coverage === undefined
+              ? {}
+              : { relationship_coverage: coverage }),
+          }),
         );
       },
     );
@@ -61,9 +75,7 @@ it.each([true, false])(
         harness.session,
         analyzed.structuredContent,
       );
-      expect(evidence.relationship_coverage).toMatchObject({
-        status: "complete",
-      });
+      expect(evidence.relationship_coverage).toEqual(coverage ?? null);
       expect(evidence.normalized_result).toEqual(dossier);
       const reply = await harness.mcp.callTool({
         name: "compare_functions",
@@ -86,7 +98,7 @@ it.each([true, false])(
         pseudocode: pseudocodeAvailable ? "unchanged" : "unknown",
         assembly: "unchanged",
         comments: "unchanged",
-        calls: "unchanged",
+        calls: reportsCoverage ? "unchanged" : "unknown",
         references: "unchanged",
         strings_names: "unchanged",
         cfg: "unchanged",
@@ -96,9 +108,7 @@ it.each([true, false])(
         evidence.parameters,
       );
       if (!replay.ok) throw replay.error;
-      expect(replay.value.relationshipCoverage).toEqual(
-        evidence.relationship_coverage,
-      );
+      expect(replay.value.relationshipCoverage).toEqual(coverage);
       expect(harness.calls).toEqual(["analyze_function"]);
     } finally {
       await harness.close();

tests/boundary/mcp/ghidraMcpHarness.ts

@@ -106,6 +106,8 @@ export const ghidraInstallationHost = (): GhidraInstallationHost => ({
   readText: () => "application.version=12.1.4\napplication.java.min=21\n",
   executable: () => true,
   probeJava: () => ({
+    osArch: "amd64",
+    osName: "Linux",
     version: "21.0.11",
     major: 21,
     home: "/usr/lib/jvm/jdk-21",

tests/boundary/mcp/ghidraReopen.test.ts

@@ -102,6 +102,8 @@ const installationHost: GhidraInstallationHost = {
   readText: () => "application.version=12.1.4\napplication.java.min=21\n",
   executable: () => true,
   probeJava: () => ({
+    osArch: "amd64",
+    osName: "Linux",
     version: "21.0.11",
     major: 21,
     home: "/fixture/jdk-21",

tests/boundary/process/electronLaunchRejections.test.ts

@@ -0,0 +1,323 @@
+import { chmod, mkdir, writeFile } from "node:fs/promises";
+import { join } from "node:path";
+
+import { expect, vi } from "vitest";
+
+import { createTestTempDirectory } from "../../fixtures/temporaryDirectory.js";
+import {
+  processTest,
+  type TestProcesses,
+} from "../../support/process/processFixture.js";
+
+const script = `
+import { PlaywrightElectronActiveProvider } from "./dist/browser/PlaywrightElectronActiveProvider.js";
+import { electronActiveObservationInputSchema } from "./dist/domain/javascript/electronActiveObservation.js";
+
+const [scenario, executable, root] = JSON.parse(process.argv[1]);
+let observedRejections = 0;
+if (scenario === "oneFailureWithManySuccesses" || scenario === "externalListenerSeesUnrelatedOnce")
+  process.on("unhandledRejection", () => { observedRejections += 1; });
+const orphanStack = (message, file) =>
+  message + "\\n    at waitForLine (/app/node_modules/playwright-core/lib/server/" + file + ":247:21)";
+const playwrightError = (message, file = "electron/electron.js") => {
+  const error = new Error(message);
+  error.stack = "Error: " + orphanStack(message, file);
+  return error;
+};
+const rejectLater = (error, ms) => setTimeout(() => void Promise.reject(error), ms);
+const fakeApplication = { process: () => ({ pid: undefined }), close: async () => undefined };
+const launchFailure = (message) =>
+  new Error("electron.launch: " + message + "\\nCall log:\\n  - <launching>");
+const after = (ms, action) => new Promise((resolve, reject) => setTimeout(() => {
+  try { resolve(action()); } catch (error) { reject(error); }
+}, ms));
+const orphans = (message) => {
+  for (let index = 0; index < 3; index += 1) void Promise.reject(playwrightError(message));
+};
+
+let during = -1;
+const launches = {
+  realLaunch: undefined,
+  realWithUnrelatedPlaywrightRejection: async (options) => {
+    void Promise.reject(playwrightError("unrelated playwright failure", "page.js"));
+    return (await import("playwright-core"))._electron.launch(options);
+  },
+  failureWithOrphans: async () => {
+    during = process.listenerCount("unhandledRejection");
+    orphans("Process failed to launch!");
+    await after(10, () => { throw launchFailure("Process failed to launch!"); });
+  },
+  failureInOneTick: async () => {
+    orphans("Process failed to launch!");
+    throw launchFailure("Process failed to launch!");
+  },
+  failureWithUnrelatedPlaywrightRejection: async () => {
+    orphans("Process failed to launch!");
+    void Promise.reject(playwrightError("Target page, context or browser has been closed", "page.js"));
+    await after(10, () => { throw launchFailure("Process failed to launch!"); });
+  },
+  externalListenerSeesUnrelatedOnce: async () => {
+    void Promise.reject(playwrightError("unrelated playwright failure", "page.js"));
+    await after(10, () => { throw launchFailure("Process failed to launch!"); });
+  },
+  pendingWithUnrelatedRejection: () => {
+    setInterval(() => {}, 1000);
+    rejectLater(new Error("unrelated application failure"), 20);
+    return new Promise(() => {});
+  },
+  success: async () => {
+    during = process.listenerCount("unhandledRejection");
+    return fakeApplication;
+  },
+  successWithPlaywrightRejection: async () => {
+    void Promise.reject(playwrightError("stray playwright failure", "page.js"));
+    await after(10, () => fakeApplication);
+    return fakeApplication;
+  },
+};
+
+const input = (executablePath) => ({
+  ...electronActiveObservationInputSchema.parse({
+    executable_path: executablePath,
+    application_path: root,
+  }),
+  application_root: root,
+});
+const capture = (launch, executablePath = executable) =>
+  new PlaywrightElectronActiveProvider({}, launch).capture(input(executablePath));
+
+const before = process.listenerCount("unhandledRejection");
+let results;
+if (scenario === "concurrentFailures" || scenario === "failureThenSuccess" || scenario === "successThenFailure" || scenario === "oneFailureWithManySuccesses") {
+  const failing = (message, orphanAt, settleAt) => async () => {
+    during = Math.max(during, process.listenerCount("unhandledRejection"));
+    await after(orphanAt, () => orphans(message));
+    await after(settleAt - orphanAt, () => { throw launchFailure(message); });
+  };
+  const succeeding = (settleAt) => () => {
+    during = Math.max(during, process.listenerCount("unhandledRejection"));
+    return after(settleAt, () => fakeApplication);
+  };
+  const pair = {
+    concurrentFailures: [failing("alpha failed", 10, 30), failing("beta failed", 20, 50)],
+    failureThenSuccess: [failing("alpha failed", 10, 20), succeeding(40)],
+    successThenFailure: [failing("alpha failed", 20, 40), succeeding(30)],
+    oneFailureWithManySuccesses: [failing("alpha failed", 10, 80), ...[20, 30, 40, 50].map(succeeding)],
+  }[scenario];
+  results = await Promise.all(pair.map((launch) => capture(launch)));
+} else {
+  results = [await capture(launches[scenario] ?? undefined)];
+}
+await new Promise((resolve) => setTimeout(resolve, 50));
+console.log(JSON.stringify({
+  before,
+  during,
+  after: process.listenerCount("unhandledRejection"),
+  observedRejections,
+  reasons: results.map((result) => result.ok ? null : result.error.reason ?? null),
+  ok: results.map((result) => result.ok),
+  causeReasons: results.map((result) => result.ok ? null : result.error.cause?.reason ?? null),
+  cleanupResources: results.map((result) => result.ok ? null : result.error.cleanupResources ?? null),
+  causes: results.map((result) => result.ok ? null : String(result.error.cause?.message).split("\\n")[0]),
+}));
+`;
+
+// A cold macOS Swift toolchain may spend up to 120 seconds building the
+// ownership reader before any child launch reaches its assertion.
+vi.setConfig({ testTimeout: 180_000 });
+
+type Outcome = {
+  readonly before: number;
+  readonly during: number;
+  readonly after: number;
+  readonly ok: readonly boolean[];
+  readonly causes: readonly (string | null)[];
+  readonly observedRejections: number;
+  readonly reasons: readonly (string | null)[];
+  readonly causeReasons: readonly (string | null)[];
+  readonly cleanupResources: readonly (readonly string[] | null)[];
+};
+
+const run = async (
+  processes: TestProcesses,
+  scenario: string,
+  executable = "/not/launched",
+  root = "/",
+) =>
+  processes.run(
+    process.execPath,
+    [
+      "--input-type=module",
+      "--eval",
+      script,
+      JSON.stringify([scenario, executable, root]),
+    ],
+    { timeoutMs: 150_000 },
+  );
+
+const outcome = (result: { readonly stdout: string }): Outcome =>
+  JSON.parse(result.stdout.trim().split("\n").at(-1) ?? "") as Outcome;
+
+const earlyExit = async () => {
+  const root = await createTestTempDirectory("rea-launch-rejections-");
+  const executable = join(root, "exits-immediately");
+  await mkdir(join(root, "app"));
+  await writeFile(executable, "#!/bin/sh\nexit 0\n");
+  await chmod(executable, 0o755);
+  return { executable, root: join(root, "app") };
+};
+
+processTest(
+  "absorbs the orphaned rejections of a failed launch and removes its listener",
+  async ({ processes }) => {
+    const result = await run(processes, "failureWithOrphans");
+    expect(result.exitCode, result.stderr).toBe(0);
+    expect(outcome(result)).toMatchObject({
+      during: outcome(result).before + 1,
+      after: outcome(result).before,
+      ok: [false],
+      causes: ["electron.launch: Process failed to launch!"],
+    });
+  },
+);
+
+processTest(
+  "absorbs orphans raised in the same tick as the launch failure",
+  async ({ processes }) => {
+    const result = await run(processes, "failureInOneTick");
+    expect(result.exitCode, result.stderr).toBe(0);
+    expect(outcome(result)).toMatchObject({ ok: [false] });
+  },
+);
+
+processTest.skipIf(process.platform === "win32")(
+  "absorbs the orphans of a real Playwright launch that exits at once",
+  async ({ processes }) => {
+    const { executable, root } = await earlyExit();
+    const result = await run(processes, "realLaunch", executable, root);
+    expect(result.exitCode, result.stderr).toBe(0);
+    expect(outcome(result)).toMatchObject({
+      ok: [false],
+      causes: ["electron.launch: Process failed to launch!"],
+    });
+    expect(outcome(result).after).toBe(outcome(result).before);
+  },
+);
+
+processTest.skipIf(process.platform === "win32")(
+  "still fails on an unrelated Playwright rejection during a real failing launch",
+  async ({ processes }) => {
+    const { executable, root } = await earlyExit();
+    const result = await run(
+      processes,
+      "realWithUnrelatedPlaywrightRejection",
+      executable,
+      root,
+    );
+    expect(result.exitCode, result.stderr).toBe(1);
+    expect(result.stderr).toContain("unrelated playwright failure");
+    expect(result.stdout).toBe("");
+  },
+);
+
+processTest(
+  "does not replay an unrelated orphan to a listener that already received it",
+  async ({ processes }) => {
+    const result = await run(processes, "externalListenerSeesUnrelatedOnce");
+    expect(result.exitCode, result.stderr).toBe(0);
+    expect(outcome(result)).toMatchObject({
+      observedRejections: 1,
+      ok: [false],
+      causes: ["electron.launch: Process failed to launch!"],
+    });
+  },
+);
+
+processTest(
+  "still fails on an unrelated Playwright rejection beside a failing launch's own orphans",
+  async ({ processes }) => {
+    const result = await run(
+      processes,
+      "failureWithUnrelatedPlaywrightRejection",
+    );
+    expect(result.exitCode, result.stderr).toBe(1);
+    expect(result.stderr).toContain(
+      "Target page, context or browser has been closed",
+    );
+    expect(result.stdout).toBe("");
+  },
+);
+
+processTest(
+  "still fails at once on an unrelated rejection while a launch is pending",
+  async ({ processes }) => {
+    const result = await run(processes, "pendingWithUnrelatedRejection");
+    expect(result.exitCode, result.stderr).toBe(1);
+    expect(result.stderr).toContain("unrelated application failure");
+    expect(result.stdout).toBe("");
+  },
+);
+
+processTest(
+  "removes its listener after a successful launch",
+  async ({ processes }) => {
+    const result = await run(processes, "success");
+    expect(result.exitCode, result.stderr).toBe(0);
+    expect(outcome(result)).toMatchObject({
+      during: outcome(result).before + 1,
+      after: outcome(result).before,
+    });
+  },
+);
+
+processTest(
+  "re-raises a Playwright rejection when the launch succeeds",
+  async ({ processes }) => {
+    const result = await run(processes, "successWithPlaywrightRejection");
+    expect(result.exitCode, result.stderr).toBe(1);
+    expect(result.stderr).toContain("stray playwright failure");
+    expect(result.stdout).toBe("");
+  },
+);
+
+processTest.for([
+  "concurrentFailures",
+  "failureThenSuccess",
+  "successThenFailure",
+])(
+  "keeps overlapping launches from re-raising each other's orphans (%s)",
+  async (scenario, { processes }) => {
+    const result = await run(processes, scenario);
+    expect(result.exitCode, result.stderr).toBe(0);
+    expect(outcome(result).after).toBe(outcome(result).before);
+  },
+);
+
+processTest(
+  "holds each orphan once across many overlapping successful launches",
+  async ({ processes }) => {
+    const result = await run(processes, "oneFailureWithManySuccesses");
+    expect(result.exitCode, result.stderr).toBe(0);
+    const observed = outcome(result);
+    expect(observed.during).toBe(observed.before + 1);
+    expect(observed.after).toBe(observed.before);
+    expect(observed.observedRejections).toBe(3);
+    expect(observed.ok).toEqual([false, false, false, false, false]);
+    expect(observed.causes[0]).toBe("electron.launch: alpha failed");
+    expect(observed.reasons).toEqual([
+      null,
+      "cleanup_failed",
+      "cleanup_failed",
+      "cleanup_failed",
+      "cleanup_failed",
+    ]);
+    expect(observed.causeReasons).toEqual([
+      null,
+      ...Array.from({ length: 4 }, () => "process_ownership_unavailable"),
+    ]);
+    expect(observed.cleanupResources).toEqual([
+      [],
+      ...Array.from({ length: 4 }, () => ["owned_process_group"]),
+    ]);
+  },
+);

tests/boundary/providers/ghidra/ghidraJavaLaunch.test.ts

@@ -50,9 +50,16 @@ if (mode === "env-failure" || (probe === "-vmargs" && mode === "vm-failure")) {
   process.stderr.write("failed " + probe + "\\n");
   process.exitCode = 3;
 } else if (probe === "-envvars") {
-  process.stdout.write(mode === "env-malformed" ? "invalid environment\\n" : "GHIDRA_MAXMEM=1G\\n");
+  process.stdout.write(mode === "env-malformed" ? "invalid environment\\n" : mode.startsWith("env-injection:") ? mode.slice("env-injection:".length) + "\\n" : "GHIDRA_MAXMEM=1G\\n");
 } else {
-  process.stdout.write(mode === "vm-malformed" ? "invalid JVM argument\\n" : "-Dfile.encoding=UTF8\\n");
+  const vmArguments = mode === "vm-malformed"
+    ? "invalid JVM argument\\n"
+    : mode === "os-arch-override"
+      ? "-Dos.arch=x86_64\\n"
+      : mode === "os-name-override"
+        ? "-Dos.name=Windows\\n"
+        : "-Dfile.encoding=UTF8\\n";
+  process.stdout.write(vmArguments);
 }
 `,
     { mode: 0o755 },
@@ -215,6 +222,57 @@ describe.skipIf(process.platform === "win32")(
       },
     );
 
+    it.each(["os-arch-override", "os-name-override"])(
+      "rejects LaunchSupport %s before starting analysis",
+      async (mode) => {
+        const { session, launcher, analysisArguments } = await fixture(mode);
+        const launched = await launcher.launch(session);
+        expect(launched.ok).toBe(false);
+        expect(analysisArguments).toEqual([]);
+        if (launched.ok)
+          throw new Error("Expected a JVM platform override failure");
+        expect(launched.error.cause).toMatchObject({
+          message: expect.stringContaining(
+            "may not override os.arch or os.name",
+          ),
+        });
+      },
+    );
+
+    it.each([
+      ["JAVA_TOOL_OPTIONS", "-Dos.arch=x86_64"],
+      ["JAVA_TOOL_OPTIONS", '"-Dos.arch=x86_64"'],
+      ["_JAVA_OPTIONS", "'-Dos.name=Windows'"],
+      ["JDK_JAVA_OPTIONS", '-D"os.name"=Windows'],
+      ["JDK_JAVA_OPTIONS", "-D'os.arch'=x86_64"],
+    ])(
+      "rejects helper-environment platform injection from %s=%s before analysis",
+      async (key, value) => {
+        const { session, launcher, analysisArguments } = await fixture(
+          `env-injection:${key}=${value}`,
+        );
+        const launched = await launcher.launch(session);
+        expect(launched.ok).toBe(false);
+        expect(analysisArguments).toEqual([]);
+        if (launched.ok)
+          throw new Error("Expected a JVM platform override failure");
+        expect(launched.error.cause).toMatchObject({
+          message: expect.stringContaining(
+            "may not override os.arch or os.name",
+          ),
+        });
+      },
+    );
+
+    it("admits a quoted non-platform option without mistaking its value for a platform argument", async () => {
+      const { session, launcher, analysisArguments } = await fixture(
+        'env-injection:JAVA_TOOL_OPTIONS=-Ddescription="text -Dos.arch=x86_64"',
+      );
+      const launched = await launcher.launch(session);
+      if (!launched.ok) throw launched.error;
+      expect(analysisArguments).toHaveLength(1);
+    });
+
     it("bounds retained UTF-8 warnings and reports original byte counts", async () => {
       const { session, launcher } = await fixture("large");
       const launched = await launcher.launch(session);
@@ -290,6 +348,13 @@ describe.skipIf(process.platform === "win32")(
               "application.version=12.1.4\napplication.java.min=21\n",
             executable: () => true,
             probeJava: () => ({
+              osArch: process.arch === "arm64" ? "aarch64" : "amd64",
+              osName:
+                process.platform === "darwin"
+                  ? "Mac OS X"
+                  : process.platform === "win32"
+                    ? "Windows 11"
+                    : "Linux",
               version: "21.0.12",
               major: 21,
               home: "/fixture/jdk",

tests/boundary/providers/ghidra/ghidraLauncher.test.ts

@@ -524,6 +524,13 @@ describe("Ghidra Windows launcher runtime", () => {
         ),
         javaHome: "C:\\Java\\jdk-21",
         bridgeScriptPath: join(parent, "ReaGhidraBridge.java"),
+        // The preflight validates the inspected JVM's LaunchSupport output;
+        // these fixtures assert batch-spawn behavior without a working JDK.
+        javaLaunch: async () => ({
+          command: "C:\\Java\\jdk-21\\bin\\java.exe",
+          arguments: [],
+          environment: {},
+        }),
         spawnProcess,
       });
       const launched = await launcher.launch({
@@ -569,6 +576,13 @@ describe("Ghidra Windows launcher runtime", () => {
         platform: "win32",
         javaHome,
         bridgeScriptPath: "/package/bridge/ReaGhidraBridge.java",
+        // The preflight validates the inspected JVM's LaunchSupport output;
+        // this fixture captures the batch launcher without a working JDK.
+        javaLaunch: async () => ({
+          command: `${javaHome}\\bin\\java.exe`,
+          arguments: [],
+          environment: {},
+        }),
       });
       const launched = await launcher.launch({
         runtimeRoot,

tests/conformance/ghidra/ReaNoReturnProbe.java

@@ -12,6 +12,8 @@ import ghidra.program.model.listing.FlowOverride;
 import ghidra.program.model.listing.Function;
 import ghidra.program.model.listing.Instruction;
 import ghidra.program.model.symbol.SourceType;
+import ghidra.program.model.symbol.Reference;
+import ghidra.program.model.symbol.RefType;
 import java.io.File;
 import java.lang.reflect.Method;
 import java.nio.file.Files;
@@ -20,9 +22,12 @@ import java.util.HexFormat;
 import java.util.LinkedHashMap;
 import java.util.List;
 import java.util.Map;
+import java.util.ArrayList;
 
 /** Injects reported analysis flags into imported ELF/Mach-O functions; never executes target code. */
 public class ReaNoReturnProbe extends GhidraScript {
+    private record MemoryCallReference(Address source, Address target, RefType type,
+        SourceType sourceType, int operandIndex, boolean primary) {}
     private final JsonArray checks = new JsonArray();
     private final Map<Function, Address> originalEnds = new LinkedHashMap<>();
     private final Map<Function, String> originalSignatures = new LinkedHashMap<>();
@@ -85,6 +90,114 @@ public class ReaNoReturnProbe extends GhidraScript {
         return instance;
     }
 
+    private void knownInteriorCall(GhidraScript bridge) throws Exception {
+        Function caller = function("rea_tls_chain");
+        Function target = function("rea_tls");
+        Address interior = target.getEntryPoint().add(1);
+        require("interior_target_is_owned", currentProgram.getFunctionManager().getFunctionAt(interior) == null &&
+            target.equals(currentProgram.getFunctionManager().getFunctionContaining(interior)));
+        Instruction call = null;
+        for (Instruction instruction : currentProgram.getListing().getInstructions(caller.getBody(), true)) {
+            if (instruction.getFlowType().isCall()) { call = instruction; break; }
+        }
+        if (call == null) throw new IllegalStateException("Missing real call instruction");
+        var references = currentProgram.getReferenceManager();
+        List<Reference> originals = new ArrayList<>();
+        List<MemoryCallReference> saved = new ArrayList<>();
+        for (Reference reference : call.getReferencesFrom()) {
+            if (!reference.getReferenceType().isCall()) continue;
+            originals.add(reference);
+            saved.add(new MemoryCallReference(reference.getFromAddress(), reference.getToAddress(),
+                reference.getReferenceType(), reference.getSource(), reference.getOperandIndex(), reference.isPrimary()));
+        }
+        require("original_call_reference_present", !originals.isEmpty());
+        Reference changed = null;
+        try {
+            for (Reference reference : originals) references.delete(reference);
+            changed = references.addMemoryReference(call.getAddress(), interior,
+                RefType.UNCONDITIONAL_CALL, SourceType.USER_DEFINED, 0);
+            require("interior_target_omitted_by_callee_getter", !caller.getCalledFunctions(monitor).contains(target));
+            JsonObject query = new JsonObject();
+            query.addProperty("document", currentProgram.getName());
+            query.addProperty("procedure", caller.getName());
+            query.addProperty("direction", "outgoing");
+            Method read = bridge.getClass().getDeclaredMethod("procedureReferences", JsonObject.class);
+            read.setAccessible(true);
+            JsonObject output = (JsonObject) read.invoke(bridge, query);
+            require("interior_reference_keeps_known_procedure", output.getAsJsonArray("references").asList().stream().anyMatch(
+                edge -> !edge.getAsJsonObject().get("target_procedure").isJsonNull() &&
+                    edge.getAsJsonObject().getAsJsonObject("target_procedure").get("name").getAsString().equals(target.getName())));
+            require("known_reference_is_not_also_unresolved", output.getAsJsonArray("unresolved_calls").isEmpty());
+            query.remove("direction");
+            Method callees = bridge.getClass().getDeclaredMethod("procedureCalls", JsonObject.class, boolean.class);
+            callees.setAccessible(true);
+            JsonObject inventory = (JsonObject) callees.invoke(bridge, query, false);
+            require("omitted_callee_inventory_stays_partial", inventory.getAsJsonObject("relationship_coverage").get("status").getAsString().equals("partial"));
+            require("omitted_callee_direction_is_explicit",
+                inventory.getAsJsonObject("relationship_coverage").getAsJsonArray("limited_directions").toString().equals("[\"callees\"]"));
+            require("interior_caller_omitted_by_entry_getter", !target.getCallingFunctions(monitor).contains(caller));
+            query.addProperty("procedure", target.getName());
+            JsonObject incoming = (JsonObject) callees.invoke(bridge, query, true);
+            require("off_entry_caller_inventory_stays_partial",
+                incoming.getAsJsonObject("relationship_coverage").get("status").getAsString().equals("partial"));
+            require("off_entry_caller_direction_is_explicit",
+                incoming.getAsJsonObject("relationship_coverage").getAsJsonArray("limited_directions").toString().equals("[\"callers\"]"));
+            JsonObject dossierQuery = new JsonObject();
+            dossierQuery.addProperty("procedure", target.getName());
+            Method analyze = bridge.getClass().getDeclaredMethod("analyzeFunctionObservation", JsonObject.class);
+            analyze.setAccessible(true);
+            Object observation = analyze.invoke(bridge, dossierQuery);
+            Method coverage = observation.getClass().getDeclaredMethod("relationshipCoverage");
+            coverage.setAccessible(true);
+            require("dossier_preserves_caller_only_gap",
+                ((JsonObject) coverage.invoke(observation)).getAsJsonArray("limited_directions").toString().equals("[\"callers\"]"));
+        } finally {
+            if (changed != null) references.delete(changed);
+            for (MemoryCallReference reference : saved) {
+                Reference restored = references.addMemoryReference(reference.source(), reference.target(),
+                    reference.type(), reference.sourceType(), reference.operandIndex());
+                references.setPrimary(restored, reference.primary());
+            }
+        }
+    }
+
+    private void nonCallInstructionReference(GhidraScript bridge) throws Exception {
+        Function caller = function("rea_tls_chain");
+        Function target = function("rea_memcpy");
+        Instruction source = null;
+        for (Instruction instruction : currentProgram.getListing().getInstructions(caller.getBody(), true)) {
+            if (!instruction.getFlowType().isCall()) { source = instruction; break; }
+        }
+        if (source == null) throw new IllegalStateException("Missing non-call instruction");
+        var references = currentProgram.getReferenceManager();
+        Reference added = references.addMemoryReference(source.getAddress(), target.getEntryPoint().add(1),
+            RefType.UNCONDITIONAL_CALL, SourceType.USER_DEFINED, -1);
+        try {
+            require("non_call_reference_target_omitted", !caller.getCalledFunctions(monitor).contains(target));
+            JsonObject query = new JsonObject();
+            query.addProperty("document", currentProgram.getName());
+            query.addProperty("procedure", caller.getName());
+            Method read = bridge.getClass().getDeclaredMethod("procedureCalls", JsonObject.class, boolean.class);
+            read.setAccessible(true);
+            JsonObject output = (JsonObject) read.invoke(bridge, query, false);
+            require("non_call_instruction_reference_stays_partial",
+                output.getAsJsonObject("relationship_coverage").get("status").getAsString().equals("partial"));
+            query.addProperty("direction", "outgoing");
+            Method edges = bridge.getClass().getDeclaredMethod("procedureReferences", JsonObject.class);
+            edges.setAccessible(true);
+            JsonObject known = (JsonObject) edges.invoke(bridge, query);
+            require("non_call_known_reference_is_not_unresolved", known.getAsJsonArray("unresolved_calls").isEmpty());
+            references.delete(added);
+            Address unknown = currentProgram.getMemory().getMaxAddress().add(0x1000);
+            added = references.addMemoryReference(source.getAddress(), unknown,
+                RefType.UNCONDITIONAL_CALL, SourceType.USER_DEFINED, -1);
+            JsonObject unresolved = (JsonObject) edges.invoke(bridge, query);
+            require("non_call_unknown_reference_keeps_site", unresolved.getAsJsonArray("unresolved_calls").size() == 1);
+        } finally {
+            references.delete(added);
+        }
+    }
+
     @Override
     public void run() throws Exception {
         String[] args = getScriptArgs();
@@ -164,6 +277,8 @@ public class ReaNoReturnProbe extends GhidraScript {
             Object output = pseudocode.invoke(bridge, query);
             require("recovered_pseudocode", output instanceof JsonObject value &&
                 value.get("value").getAsString().contains("rea_after_call"));
+            nonCallInstructionReference(bridge);
+            knownInteriorCall(bridge);
         } finally {
             ((ghidra.app.decompiler.DecompInterface) field.get(bridge)).dispose();
         }