Implement local agent JWT authentication for adapters

Add HS256 JWT-based authentication for local adapters (claude_local, codex_local)
so agents authenticate automatically without manual API key configuration. The
server mints short-lived JWTs per heartbeat run and injects them as PAPERCLIP_API_KEY.
The auth middleware verifies JWTs alongside existing static API keys.

Includes: CLI onboard/doctor JWT secret management, env command for deployment,
config path resolution from ancestor directories, dotenv loading on server startup,
event payload secret redaction, multi-status issue filtering, and adapter transcript
parsing for thinking/user message kinds.

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

packages/adapters/codex-local/src/server/execute.ts

@@ -16,7 +16,7 @@ import {
 import { parseCodexJsonl } from "./parse.js";
 
 export async function execute(ctx: AdapterExecutionContext): Promise<AdapterExecutionResult> {
-  const { runId, agent, runtime, config, context, onLog, onMeta } = ctx;
+  const { runId, agent, runtime, config, context, onLog, onMeta, authToken } = ctx;
 
   const promptTemplate = asString(
     config.promptTemplate,
@@ -31,10 +31,15 @@ export async function execute(ctx: AdapterExecutionContext): Promise<AdapterExec
   const cwd = asString(config.cwd, process.cwd());
   await ensureAbsoluteDirectory(cwd);
   const envConfig = parseObject(config.env);
+  const hasExplicitApiKey =
+    typeof envConfig.PAPERCLIP_API_KEY === "string" && envConfig.PAPERCLIP_API_KEY.trim().length > 0;
   const env: Record<string, string> = { ...buildPaperclipEnv(agent) };
   for (const [k, v] of Object.entries(envConfig)) {
     if (typeof v === "string") env[k] = v;
   }
+  if (!hasExplicitApiKey && authToken) {
+    env.PAPERCLIP_API_KEY = authToken;
+  }
   const runtimeEnv = ensurePathInEnv({ ...process.env, ...env });
   await ensureCommandResolvable(command, cwd, runtimeEnv);