@codeyam/codeyam-cli 0.1.0-staging.483fdc2 → 0.1.0-staging.50df560

package/packages/analyze/src/lib/files/scenarios/mergeInDependentDataStructure.js

@@ -1,5 +1,6 @@
 import { splitOutsideParenthesesAndArrays, joinParenthesesAndArrays, } from "../../../../../../packages/ai/index.js";
 import { cleanKnownObjectFunctionsFromMapping } from "../../../../../../packages/ai/index.js";
+import { transformationTracer } from "./TransformationTracer.js";
 function cleanFunctionName(functionName) {
     return functionName?.split('<')[0];
 }
@@ -34,6 +35,7 @@ const PRIMITIVE_TYPES = new Set([
 ]);
 // Check if a type string represents a primitive type
 // Handles union types like "string | undefined" or "number | null"
+// Also handles string literal unions like "'suggestion' | 'warning' | 'tip'"
 function isPrimitiveType(typeStr) {
     if (PRIMITIVE_TYPES.has(typeStr)) {
         return true;
@@ -41,12 +43,21 @@ function isPrimitiveType(typeStr) {
     // Check union types - if ALL parts of the union are primitives, it's primitive
     // e.g., "string | undefined" -> ["string", "undefined"] -> both are primitive -> true
     // e.g., "object | null" -> ["object", "null"] -> object is not primitive -> false
+    // e.g., "'suggestion' | 'warning'" -> string literal union -> true
     if (typeStr.includes('|')) {
         const parts = typeStr.split('|').map((p) => p.trim());
-        return parts.every((part) => PRIMITIVE_TYPES.has(part));
+        return parts.every((part) => PRIMITIVE_TYPES.has(part) ||
+            // String literal values like 'suggestion', 'warning' are primitives
+            (part.startsWith("'") && part.endsWith("'")));
     }
     return false;
 }
+// Extract signature index from a path like "signature[0]" or "signature[0].foo"
+// Returns the index number or undefined if not a signature path
+function extractSignatureIndex(path) {
+    const match = path.match(/^signature\[(\d+)\]/);
+    return match ? parseInt(match[1], 10) : undefined;
+}
 // Check if a new schema path would go through a primitive type
 // e.g., if schema has 'entities[].scenarioCount': 'number', then
 // 'entities[].scenarioCount.sha' would go through a primitive and should be rejected
@@ -76,9 +87,19 @@ function pathPartMatches(pathPart, schemaPathPart) {
 }
 function bestValueFromOptions(options) {
     options = options.filter(Boolean);
-    const known = options.find((o) => !o.includes('unknown'));
-    if (known) {
-        return known;
+    const known = options.filter((o) => !o.includes('unknown'));
+    if (known.length > 0) {
+        // Among known values, prefer string literal unions over bare primitives.
+        // e.g., "'draft' | 'inProgress' | 'paused' | 'completed'" is more specific than "string".
+        // This handles cases where a dependency schema has a bare type like "string" but the
+        // child entity's analysis has the actual literal union from TypeScript type resolution.
+        if (known.length > 1 && known.some((o) => PRIMITIVE_TYPES.has(o))) {
+            const literalUnion = known.find((o) => !PRIMITIVE_TYPES.has(o) && o.includes("'"));
+            if (literalUnion) {
+                return literalUnion;
+            }
+        }
+        return known[0];
     }
     const notUnknown = options.find((o) => o !== 'unknown');
     if (notUnknown) {
@@ -128,6 +149,21 @@ export default function mergeInDependentDataStructure({ importedExports, depende
         }
     }
     let equivalentSchemaPaths = [];
+    // O(1) index for findOrCreateEquivalentSchemaPathsEntry.
+    // Maps "(rootPath)::(normalizedFuncName)" → the entry containing that root.
+    // This replaces the O(E) linear search that was causing O(E²) gather performance.
+    const espIndex = new Map();
+    const espIndexKey = (path, functionName) => {
+        const normalized = cleanFunctionName(functionName);
+        const funcKey = normalized === rootScopeName ? '__self__' : normalized || '__self__';
+        return `${path}::${funcKey}`;
+    };
+    const updateEspIndex = (entry) => {
+        for (const root of entry.equivalentRoots) {
+            const funcName = root.function?.name ?? rootScopeName;
+            espIndex.set(espIndexKey(root.schemaRootPath, funcName), entry);
+        }
+    };
     // Pre-build a lookup map from cleaned function name to dependency for O(1) lookups.
     // This avoids O(n) linear search in findRelevantDependency which was causing O(n²) performance.
     const dependencyByCleanedName = new Map();
@@ -166,8 +202,8 @@ export default function mergeInDependentDataStructure({ importedExports, depende
         });
         return mergedDataStructure.dependencySchemas[filePath][name];
     };
-    const cleanSchema = (schema) => {
-        cleanKnownObjectFunctionsFromMapping(schema);
+    const cleanSchema = (schema, context) => {
+        transformationTracer.traceSchemaTransform(rootScopeName, 'cleanKnownObjectFunctionsFromMapping', schema, cleanKnownObjectFunctionsFromMapping, context);
     };
     const translatePath = (path, dependencyName) => {
         if (path.startsWith(dependencyName)) {
@@ -207,6 +243,41 @@ export default function mergeInDependentDataStructure({ importedExports, depende
     const gatherAllEquivalentSchemaPaths = (functionName, sourceAndUsageEquivalencies, dataStructure) => {
         if (!sourceAndUsageEquivalencies)
             return;
+        const normalizedSchemaCache = new Map();
+        const getSchemaIndex = (schema) => {
+            if (!schema)
+                return { byFirstPart: new Map() };
+            const cached = normalizedSchemaCache.get(schema);
+            if (cached)
+                return cached;
+            const byFirstPart = new Map();
+            for (const path in schema) {
+                let parts = splitOutsideParenthesesAndArrays(path);
+                if (parts[0].startsWith(functionName)) {
+                    const baseName = cleanFunctionName(parts[0]);
+                    if (!functionsWithMultipleTypeParams.has(baseName)) {
+                        parts =
+                            parts[1] === 'functionCallReturnValue'
+                                ? ['returnValue', ...parts.slice(2)]
+                                : parts.slice(1);
+                    }
+                }
+                const entry = { path, parts };
+                // Index by the base of the first part (before any function call args)
+                const firstPart = parts[0] ?? '';
+                const parenIdx = firstPart.indexOf('(');
+                const firstPartBase = parenIdx >= 0 ? firstPart.slice(0, parenIdx) : firstPart;
+                let bucket = byFirstPart.get(firstPartBase);
+                if (!bucket) {
+                    bucket = [];
+                    byFirstPart.set(firstPartBase, bucket);
+                }
+                bucket.push(entry);
+            }
+            const result = { byFirstPart };
+            normalizedSchemaCache.set(schema, result);
+            return result;
+        };
         const findOrCreateEquivalentSchemaPathsEntry = (allPaths) => {
             const equivalentRoots = allPaths
                 .filter((p) => p.functionName === rootScopeName ||
@@ -218,19 +289,93 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                     : findRelevantDependency(p.functionName),
             }));
             let equivalentSchemaPathsEntry;
+            // Collect the signature indices from the new roots we want to add
+            const newRootSignatureIndices = new Set();
+            for (const root of equivalentRoots) {
+                const idx = extractSignatureIndex(root.schemaRootPath);
+                if (idx !== undefined) {
+                    newRootSignatureIndices.add(idx);
+                }
+            }
+            // Use espIndex Map for O(1) lookup instead of O(E) linear search.
+            // Falls back to linear search only when Map hit has a signature index conflict.
             for (const pathInfo of allPaths) {
-                if (!equivalentSchemaPathsEntry) {
-                    equivalentSchemaPathsEntry = equivalentSchemaPaths.find((esp) => esp.equivalentRoots.some((er) => er.schemaRootPath === pathInfo.path &&
-                        (er.function?.name ===
-                            cleanFunctionName(pathInfo.functionName) ||
-                            (!er.function &&
-                                cleanFunctionName(pathInfo.functionName) ===
-                                    rootScopeName))));
+                if (equivalentSchemaPathsEntry)
+                    break;
+                const candidate = espIndex.get(espIndexKey(pathInfo.path, pathInfo.functionName));
+                if (!candidate)
+                    continue;
+                // Verify no signature index conflict with the candidate entry
+                if (newRootSignatureIndices.size > 0) {
+                    const existingIndicesByFunction = new Map();
+                    for (const er of candidate.equivalentRoots) {
+                        const funcKey = er.function
+                            ? `${er.function.name}::${er.function.filePath}`
+                            : '__self__';
+                        const idx = extractSignatureIndex(er.schemaRootPath);
+                        if (idx !== undefined) {
+                            if (!existingIndicesByFunction.has(funcKey)) {
+                                existingIndicesByFunction.set(funcKey, new Set());
+                            }
+                            existingIndicesByFunction.get(funcKey).add(idx);
+                        }
+                    }
+                    let hasConflict = false;
+                    for (const newRoot of equivalentRoots) {
+                        const funcKey = newRoot.function
+                            ? `${newRoot.function.name}::${newRoot.function.filePath}`
+                            : '__self__';
+                        const newIdx = extractSignatureIndex(newRoot.schemaRootPath);
+                        if (newIdx !== undefined) {
+                            const existingIndices = existingIndicesByFunction.get(funcKey);
+                            if (existingIndices && existingIndices.size > 0) {
+                                if (!existingIndices.has(newIdx)) {
+                                    hasConflict = true;
+                                    break;
+                                }
+                            }
+                        }
+                    }
+                    if (hasConflict)
+                        continue;
                 }
+                equivalentSchemaPathsEntry = candidate;
             }
             if (!equivalentSchemaPathsEntry) {
+                // Before creating a new entry, filter out roots that have conflicting
+                // signature indices from the same function. An entry should never contain
+                // roots with different signature indices from the same function.
+                // This prevents the bug where signature[1], signature[2], signature[4]
+                // all get merged together due to incorrect sourceEquivalencies.
+                let filteredRoots = equivalentRoots;
+                if (newRootSignatureIndices.size > 1) {
+                    // There are multiple signature indices - we need to filter to keep only
+                    // one consistent set. We'll keep the roots that match the PRIMARY index
+                    // (the first signature index we encounter from self, or the lowest index).
+                    // First, determine the primary index - prefer the self root's index
+                    let primaryIndex;
+                    for (const root of equivalentRoots) {
+                        if (!root.function) {
+                            // This is a self root
+                            const idx = extractSignatureIndex(root.schemaRootPath);
+                            if (idx !== undefined) {
+                                primaryIndex = idx;
+                                break;
+                            }
+                        }
+                    }
+                    // If no self root has a signature index, use the lowest index
+                    if (primaryIndex === undefined) {
+                        primaryIndex = Math.min(...newRootSignatureIndices);
+                    }
+                    // Filter roots: keep if no signature index OR signature index matches primary
+                    filteredRoots = equivalentRoots.filter((root) => {
+                        const idx = extractSignatureIndex(root.schemaRootPath);
+                        return idx === undefined || idx === primaryIndex;
+                    });
+                }
                 equivalentSchemaPathsEntry = {
-                    equivalentRoots,
+                    equivalentRoots: filteredRoots,
                     equivalentPostfixes: {},
                 };
                 equivalentSchemaPaths.push(equivalentSchemaPathsEntry);
@@ -248,6 +393,8 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                     seenRoots.add(key);
                     return true;
                 });
+            // Keep the espIndex in sync after adding/deduplicating roots
+            updateEspIndex(equivalentSchemaPathsEntry);
             return equivalentSchemaPathsEntry;
         };
         // Helper to extract function name from a path that starts with a function call.
@@ -303,6 +450,8 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                     p.functionName === rootScopeName ||
                     p.functionName === effectiveFunctionName);
                 const derivedBasePaths = [];
+                const allPathSet = new Set(allPaths.map((p) => p.path));
+                const derivedBasePathSet = new Set();
                 // For each child path, find its equivalent parent path and derive bases
                 for (const childPathInfo of childPaths) {
                     const childParts = splitOutsideParenthesesAndArrays(childPathInfo.path);
@@ -351,23 +500,23 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                                     parentHasArrayIterator &&
                                     !childHasArrayIterator &&
                                     !childBaseIsGenericSignature) {
-                                    // Add child base if not already present
-                                    const childBaseExists = allPaths.some((p) => p.path === childBase) ||
-                                        derivedBasePaths.some((p) => p.path === childBase);
-                                    if (!childBaseExists) {
+                                    // Add child base if not already present (O(1) Set lookup)
+                                    if (!allPathSet.has(childBase) &&
+                                        !derivedBasePathSet.has(childBase)) {
                                         derivedBasePaths.push({
                                             path: childBase,
                                             functionName: childPathInfo.functionName,
                                         });
+                                        derivedBasePathSet.add(childBase);
                                     }
-                                    // Add parent base if not already present
-                                    const parentBaseExists = allPaths.some((p) => p.path === parentBase) ||
-                                        derivedBasePaths.some((p) => p.path === parentBase);
-                                    if (!parentBaseExists) {
+                                    // Add parent base if not already present (O(1) Set lookup)
+                                    if (!allPathSet.has(parentBase) &&
+                                        !derivedBasePathSet.has(parentBase)) {
                                         derivedBasePaths.push({
                                             path: parentBase,
                                             functionName: parentPathInfo.functionName,
                                         });
+                                        derivedBasePathSet.add(parentBase);
                                     }
                                 }
                             }
@@ -376,6 +525,25 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                 }
                 allPaths.push(...derivedBasePaths);
                 const entry = findOrCreateEquivalentSchemaPathsEntry(allPaths);
+                // Trace equivalency gathering - helps debug why paths may not be connected
+                if (allPaths.length > 1) {
+                    transformationTracer.operation(rootScopeName, {
+                        operation: 'gatherEquivalency',
+                        stage: 'gathering',
+                        path: translatedPath,
+                        context: {
+                            sourceFunction: functionName,
+                            equivalentPaths: allPaths.map((p) => ({
+                                path: p.path,
+                                function: p.functionName,
+                            })),
+                            equivalentRoots: entry.equivalentRoots.map((r) => ({
+                                path: r.schemaRootPath,
+                                function: r.function?.name,
+                            })),
+                        },
+                    });
+                }
                 for (const equivalentRoot of entry.equivalentRoots) {
                     const dataStructures = equivalentRoot.function &&
                         equivalentRoot.function.name !== rootScopeName
@@ -404,18 +572,16 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                         pathParts = pathParts.slice(1);
                     }
                     for (const schema of schemas) {
-                        for (const schemaPath in schema) {
-                            let schemaPathParts = splitOutsideParenthesesAndArrays(schemaPath);
-                            if (schemaPathParts[0].startsWith(functionName)) {
-                                // Only normalize if the function doesn't have multiple different type parameters
-                                const baseName = cleanFunctionName(schemaPathParts[0]);
-                                if (!functionsWithMultipleTypeParams.has(baseName)) {
-                                    schemaPathParts =
-                                        schemaPathParts[1] === 'functionCallReturnValue'
-                                            ? ['returnValue', ...schemaPathParts.slice(2)]
-                                            : schemaPathParts.slice(1);
-                                }
-                            }
+                        // Use pre-computed index to only iterate schema entries whose
+                        // normalized first part matches pathParts[0], instead of all entries.
+                        const schemaIndex = getSchemaIndex(schema);
+                        const lookupPart = pathParts[0] ?? '';
+                        const lookupParenIdx = lookupPart.indexOf('(');
+                        const lookupBase = lookupParenIdx >= 0
+                            ? lookupPart.slice(0, lookupParenIdx)
+                            : lookupPart;
+                        const candidates = schemaIndex.byFirstPart.get(lookupBase) || [];
+                        for (const { path: schemaPath, parts: schemaPathParts, } of candidates) {
                             if (schemaPathParts.length < pathParts.length)
                                 continue;
                             // Check if all path parts match (allowing function call variants)
@@ -474,13 +640,27 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                                 else {
                                     // Regular exact match - use the standard postfix logic
                                     const postfix = joinParenthesesAndArrays(schemaPathParts.slice(matchedUpToIndex));
-                                    entry.equivalentPostfixes[postfix] = entry
-                                        .equivalentPostfixes[postfix]
-                                        ? bestValueFromOptions([
-                                            entry.equivalentPostfixes[postfix],
-                                            schema[schemaPath],
-                                        ])
-                                        : schema[schemaPath];
+                                    const previousValue = entry.equivalentPostfixes[postfix];
+                                    const newValue = schema[schemaPath];
+                                    entry.equivalentPostfixes[postfix] = previousValue
+                                        ? bestValueFromOptions([previousValue, newValue])
+                                        : newValue;
+                                    // Trace postfix gathering - shows where type info comes from
+                                    if (entry.equivalentPostfixes[postfix] !== previousValue) {
+                                        transformationTracer.operation(rootScopeName, {
+                                            operation: 'gatherPostfix',
+                                            stage: 'gathering',
+                                            path: postfix || '(root)',
+                                            before: previousValue,
+                                            after: entry.equivalentPostfixes[postfix],
+                                            context: {
+                                                sourceSchemaPath: schemaPath,
+                                                sourceFunction: equivalentRoot.function?.name || rootScopeName,
+                                                equivalentRootPath: equivalentRoot.schemaRootPath,
+                                                rawValue: newValue,
+                                            },
+                                        });
+                                    }
                                 }
                             }
                         }
@@ -512,10 +692,14 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                 const entry = findOrCreateEquivalentSchemaPathsEntry([
                     { path: translatedBasePath, functionName: functionName },
                 ]);
-                entry.equivalentRoots.push({
+                const newRoot = {
                     schemaRootPath: translatedBasePath,
                     function: findRelevantDependency(functionName),
-                });
+                };
+                entry.equivalentRoots.push(newRoot);
+                // Update index for the newly added root
+                const newRootFuncName = newRoot.function?.name ?? rootScopeName;
+                espIndex.set(espIndexKey(newRoot.schemaRootPath, newRootFuncName), entry);
                 const basePathParts = splitOutsideParenthesesAndArrays(basePath);
                 for (const schemaPath in dataStructure.returnValueSchema) {
                     const schemaPathParts = splitOutsideParenthesesAndArrays(schemaPath);
@@ -529,12 +713,13 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                         continue;
                     }
                     const postfix = joinParenthesesAndArrays(schemaPathParts.slice(basePathParts.length));
-                    entry.equivalentPostfixes[postfix] = entry.equivalentPostfixes[postfix]
+                    const newValue = entry.equivalentPostfixes[postfix]
                         ? bestValueFromOptions([
                             entry.equivalentPostfixes[postfix],
                             dataStructure.returnValueSchema[schemaPath],
                         ])
                         : dataStructure.returnValueSchema[schemaPath];
+                    entry.equivalentPostfixes[postfix] = newValue;
                 }
             }
         }
@@ -573,6 +758,8 @@ export default function mergeInDependentDataStructure({ importedExports, depende
         }
         const findEquivalentSchemaPathEntry = (schemaSubPath, equivalentRootFunction) => {
             let postfix;
+            // Get the signature index we're looking for (if any)
+            const lookingForSignatureIndex = extractSignatureIndex(schemaSubPath);
             const equivalentEntry = mergedEquivalentSchemaPaths.find((esp) => esp.equivalentRoots.some((er) => {
                 if ((schemaSubPath.startsWith('returnValue') ||
                     schemaSubPath.startsWith('signature[')) &&
@@ -581,6 +768,26 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                     return false;
                 }
                 if (schemaSubPath === er.schemaRootPath) {
+                    // Additional check: if we're looking for a signature path, make sure
+                    // the entry doesn't already have DIFFERENT signature indices.
+                    // This prevents entries with signature[1], signature[2], signature[4]
+                    // from all being merged together.
+                    if (lookingForSignatureIndex !== undefined) {
+                        const hasConflictingSignatureIndex = esp.equivalentRoots.some((otherRoot) => {
+                            // Only check roots from the same function
+                            if (otherRoot.function?.name !== equivalentRootFunction?.name ||
+                                otherRoot.function?.filePath !==
+                                    equivalentRootFunction?.filePath) {
+                                return false;
+                            }
+                            const otherIndex = extractSignatureIndex(otherRoot.schemaRootPath);
+                            return (otherIndex !== undefined &&
+                                otherIndex !== lookingForSignatureIndex);
+                        });
+                        if (hasConflictingSignatureIndex) {
+                            return false;
+                        }
+                    }
                     postfix = er.postfix;
                     return true;
                 }
@@ -666,6 +873,9 @@ export default function mergeInDependentDataStructure({ importedExports, depende
         }
     }
     equivalentSchemaPaths = mergeAllEquivalentSchemaPaths();
+    // Collect schemas that need cleaning — batch the calls for the end instead of
+    // calling cleanSchema inside the inner root loop (which was O(roots * schemaSize)).
+    const schemasToClean = new Set();
     for (const esp of equivalentSchemaPaths) {
         // Pre-compute which postfixes have children to avoid O(n²) lookups in the inner loop.
         // A postfix "has children" if there are other postfixes that extend it.
@@ -744,6 +954,15 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                 // Skip paths that would go through a primitive type
                 // e.g., if schema has 'entities[].scenarioCount': 'number', skip 'entities[].scenarioCount.sha'
                 if (wouldGoThroughPrimitive(newSchemaPath, schema)) {
+                    transformationTracer.operation(rootScopeName, {
+                        operation: 'skipPrimitivePath',
+                        stage: 'merged',
+                        path: newSchemaPath,
+                        context: {
+                            reason: 'would go through primitive type',
+                            postfixValue,
+                        },
+                    });
                     continue;
                 }
                 // Skip setting primitive type when there are child postfixes that indicate structure.
@@ -762,20 +981,57 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                     // e.g., if schema has 'entities[].scenarioCount': 'number', don't overwrite with 'object'
                     if (PRIMITIVE_TYPES.has(existingType) &&
                         (postfixValue === 'object' || postfixValue === 'array')) {
+                        transformationTracer.operation(rootScopeName, {
+                            operation: 'skipTypeDowngrade',
+                            stage: 'merged',
+                            path: newSchemaPath,
+                            context: {
+                                reason: 'would overwrite primitive with object/array',
+                                existingType,
+                                newType: postfixValue,
+                            },
+                        });
                         continue;
                     }
                     // Don't overwrite a complex/union type with a primitive
                     // e.g., if schema has 'scenarios[]': 'Scenario | null', don't overwrite with 'string'
                     if (!PRIMITIVE_TYPES.has(existingType) &&
                         PRIMITIVE_TYPES.has(postfixValue)) {
+                        transformationTracer.operation(rootScopeName, {
+                            operation: 'skipTypeDowngrade',
+                            stage: 'merged',
+                            path: newSchemaPath,
+                            context: {
+                                reason: 'would overwrite complex type with primitive',
+                                existingType,
+                                newType: postfixValue,
+                            },
+                        });
                         continue;
                     }
                 }
+                // Log the successful postfix merge
+                transformationTracer.operation(rootScopeName, {
+                    operation: 'mergePostfix',
+                    stage: 'merged',
+                    path: newSchemaPath,
+                    before: existingType,
+                    after: postfixValue,
+                    context: {
+                        schemaRootPath: equivalentRoot.schemaRootPath,
+                        postfix: relevantPostfix,
+                        dependency: equivalentRoot.function?.name,
+                    },
+                });
                 schema[newSchemaPath] = postfixValue;
             }
-            cleanSchema(schema);
+            schemasToClean.add(schema);
         }
     }
+    // Batch-clean all modified schemas once (instead of once per root per ESP entry)
+    for (const schema of schemasToClean) {
+        cleanSchema(schema, { stage: 'afterMergePostfix' });
+    }
     // Propagate equivalency-derived attributes to generic function call variants.
     // When attributes are traced via equivalencies (e.g., fileComparisons from buildDataMap.signature[2]),
     // they get written to non-generic paths (returnValue.data.x or funcName().functionCallReturnValue.data.x).
@@ -872,6 +1128,14 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                 // e.g., returnValue[].label -> getOptions().functionCallReturnValue[].label
                 normalizedPath = path.replace(/^returnValue/, `${dependency.name}().functionCallReturnValue`);
             }
+            transformationTracer.operation(rootScopeName, {
+                operation: 'normalizeReturnValuePath',
+                stage: 'merged',
+                path: normalizedPath,
+                before: path,
+                after: normalizedPath,
+                context: { dependency: dependency.name, value },
+            });
             depSchema.returnValueSchema[normalizedPath] = value;
         }
         // Now copy paths from the source schema (dependencySchemas)
@@ -938,7 +1202,10 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                 }
             }
         }
-        cleanSchema(depSchema.returnValueSchema);
+        cleanSchema(depSchema.returnValueSchema, {
+            stage: 'afterMockedDependencyMerge',
+            dependency: dependency.name,
+        });
         // Pull signature requirements from downstream functions into the mocked return value.
         // When a mocked function's return flows into another function's signature (via usageEquivalencies),
         // we need to include that function's signature requirements in the mock.
@@ -1003,7 +1270,10 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                 }
             }
         }
-        cleanSchema(depSchema.returnValueSchema);
+        cleanSchema(depSchema.returnValueSchema, {
+            stage: 'afterSignatureRequirementsMerge',
+            dependency: dependency.name,
+        });
     }
     // Process the input dependencySchemas FIRST (before child dependentAnalyses).
     // This ensures the parent entity's direct usage of dependencies takes precedence.
@@ -1039,7 +1309,11 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                 // from the copied schema. Without this, method call paths on primitives like
                 // "projectSlug.replace(...)" would cause convertDotNotation to create nested
                 // object structures instead of preserving the primitive type.
-                cleanSchema(depSchema.returnValueSchema);
+                cleanSchema(depSchema.returnValueSchema, {
+                    stage: 'afterDependencySchemaCopy',
+                    filePath,
+                    dependency: name,
+                });
             }
             // TYPE REFINEMENT: Check if dependentAnalyses has a more specific type for this dependency.
             // When a parent passes `entity.filePath` (string | undefined) to a child component
@@ -1098,7 +1372,12 @@ export default function mergeInDependentDataStructure({ importedExports, depende
                                 srcSchema.returnValueSchema[path];
                         }
                     }
-                    cleanSchema(variantSchema.returnValueSchema);
+                    cleanSchema(variantSchema.returnValueSchema, {
+                        stage: 'afterTypeVariantCopy',
+                        filePath,
+                        dependency: name,
+                        variant,
+                    });
                 }
             }
         }