feat(ai): add permissions to settings configuration

.claude/settings.json

@@ -1,6 +1,7 @@
 {
-  "enabledMcpjsonServers": [
-    "serena"
-  ],
-  "enableAllProjectMcpServers": true
-}
+  "enabledMcpjsonServers": ["serena"],
+  "enableAllProjectMcpServers": true,
+  "permissions": {
+    "allow": ["mcp__filesystem__list_directory", "mcp__filesystem__write_file"]
+  }
+}