fix(tools): clear timeout timers and update audit state

src/tools/executor.ts

@@ -224,6 +224,7 @@ export class ToolExecutor {
       agent_tier: context?.tier,
     });
 
+    let timeoutHandle: NodeJS.Timeout | undefined;
     try {
       const result = await Promise.race([
         (async () => {
@@ -239,9 +240,12 @@ export class ToolExecutor {
           }
           return tool.execute(args);
         })(),
-        new Promise<ToolResult>((_, reject) =>
-          setTimeout(() => reject(new Error(`Tool '${toolName}' timed out after ${this.defaultTimeoutMs}ms`)), this.defaultTimeoutMs),
-        ),
+        new Promise<ToolResult>((_, reject) => {
+          timeoutHandle = setTimeout(
+            () => reject(new Error(`Tool '${toolName}' timed out after ${this.defaultTimeoutMs}ms`)),
+            this.defaultTimeoutMs,
+          );
+        }),
       ]);
 
       const duration = Date.now() - startTime;
@@ -286,6 +290,10 @@ export class ToolExecutor {
         output: '',
         error: String(errorRedaction.value),
       };
+    } finally {
+      if (timeoutHandle) {
+        clearTimeout(timeoutHandle);
+      }
     }
   }