fix: support root execution and factory-registered tool lookup

- Replace --dangerously-skip-permissions with --allowedTools whitelist
  to support running Claude Code as root (root blocks the former flag)
- Fix /mcp/execute tool lookup for plugins that register tools via
  factory functions (e.g. padded-cell pcexec) where the global registry
  names array is empty — now falls back to instantiating factories and
  matching by returned tool name

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>

plugin/core/claude/sdk-adapter.ts

@@ -17,7 +17,8 @@ export type OpenAITool = {
 
 export type ClaudeDispatchOptions = {
   prompt: string;
-  /** System prompt passed via --system-prompt on every invocation (stateless, not stored in session) */
+  /** Appended to Claude Code's built-in system prompt via --append-system-prompt on every invocation.
+   *  Stateless: not persisted in session file, fully replaces any prior appended content on resume. */
   systemPrompt?: string;
   workspace: string;
   agentId?: string;
@@ -97,7 +98,7 @@ export async function* dispatchToClaude(
     workspace,
     agentId = "",
     resumeSessionId,
-    permissionMode = "bypassPermissions",
+    permissionMode = "default",
     openclawTools,
     bridgePort = 18800,
     bridgeApiKey = "",
@@ -111,15 +112,15 @@ export async function* dispatchToClaude(
     prompt,
     "--output-format", "stream-json",
     "--verbose",
-    "--permission-mode", permissionMode,
-    "--dangerously-skip-permissions",
+    "--allowedTools", "Bash Edit Write Read Glob Grep WebFetch WebSearch NotebookEdit Monitor TodoWrite mcp__openclaw__*",
   ];
 
-  // --system-prompt is stateless (not persisted in session file) and fully
-  // replaces any prior system prompt on each invocation, including resumes.
-  // We pass it every turn so skills/persona stay current.
+  // --append-system-prompt appends to Claude Code's built-in system prompt rather
+  // than replacing it, preserving the full agent SDK instructions (tool use behavior,
+  // memory management, etc.). The appended bootstrap (persona + skills) is stateless:
+  // not persisted in the session file, takes effect every invocation including resumes.
   if (systemPrompt) {
-    args.push("--system-prompt", systemPrompt);
+    args.push("--append-system-prompt", systemPrompt);
   }
 
   if (resumeSessionId) {

plugin/web/server.ts

@@ -321,21 +321,8 @@ export function createBridgeServer(config: BridgeServerConfig): http.Server {
           return;
         }
 
-        // Find the tool registration by name
-        const toolReg = pluginRegistry.tools.find((t) => t.names.includes(toolName));
-        if (!toolReg) {
-          sendJson(res, 200, { error: `Tool '${toolName}' not registered in OpenClaw plugin registry` });
-          return;
-        }
-
-        // Build tool execution context.
-        // config is required by memory tools (resolveMemoryToolContext checks it).
-        // Read from globalThis where index.ts stores api.config on every registration.
-        // sessionKey must be in OpenClaw's canonical format "agent:<agentId>:<rest>" so that
-        // parseAgentSessionKey() can extract the agentId for memory tool context resolution.
+        // Build tool execution context (needed before tool lookup for factory instantiation).
         const liveConfig = (_G["_contractorOpenClawConfig"] ?? null) as Record<string, unknown> | null;
-        // Construct a canonical session key so memory tools can resolve the agentId from it.
-        // Format: "agent:<agentId>:direct:bridge"
         const canonicalSessionKey = execAgentId ? `agent:${execAgentId}:direct:bridge` : undefined;
         const toolCtx = {
           config: liveConfig ?? undefined,
@@ -345,6 +332,28 @@ export function createBridgeServer(config: BridgeServerConfig): http.Server {
           sessionKey: canonicalSessionKey,
         };
 
+        // Find tool by name. Some plugins register tools via factory functions without
+        // declaring names upfront (names array is empty). For those, instantiate the
+        // factory and match by the returned tool's .name property.
+        let toolReg = pluginRegistry.tools.find((t) => t.names.includes(toolName));
+        if (!toolReg) {
+          for (const candidate of pluginRegistry.tools) {
+            if (candidate.names.length > 0) continue;
+            try {
+              const inst = candidate.factory(toolCtx);
+              const items = Array.isArray(inst) ? inst : [inst];
+              if (items.some((t) => (t as { name?: string }).name === toolName)) {
+                toolReg = candidate;
+                break;
+              }
+            } catch { /* skip */ }
+          }
+        }
+        if (!toolReg) {
+          sendJson(res, 200, { error: `Tool '${toolName}' not registered in OpenClaw plugin registry` });
+          return;
+        }
+
         // Instantiate the tool via its factory
         const toolOrTools = toolReg.factory(toolCtx);
         const toolInstance = Array.isArray(toolOrTools)