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Use mcp-audit as a guardrail, not a one-off report:

• Add mcp-audit scan to CI to catch accidental secret commits in MCP configs.
• Run source-scan on any in-house MCP server before granting it broad access.
• Prefer SARIF output if you already use GitHub code scanning, so findings land where engineers work.

README excerpt (verbatim)

MCP Audit

See what your AI agents can access - before they go live.

Web App

CLI

What It Does

MCP Audit scans your AI development tools (Claude Desktop, Cursor, VS Code) and reveals:

• Secrets - Exposed API keys, tokens, database passwords
• APIs - Every endpoint your AI agents connect to
• AI Models - Which LLMs are configured (GPT-4, Claude, Llama)
• Risk Flags - Shell access, filesystem access, unverified sources

⚠️  2 SECRET(S) DETECTED - IMMEDIATE ACTION REQUIRED

[CRITICAL] GitHub Personal Access Token
  Location: github-tools → env.GITHUB_TOKEN
  Remediation: https://github.com/settings/tokens → Delete → Recreate

[HIGH] Database Connection String
  Location: postgres-mcp → env.DATABASE_URL
  Remediation: Rotate credentials, use secrets manager

Source-level Scanning (new in v1.1)

mcp-audit scan inventories MCP server configurations. The new mcp-audit source-scan command goes one level deeper — it reads the MCP server's own source code and flags code-level vulnerabilities the server author may have introduced.

Today it catches the "Prompt In, Shell Out" attack chain: an MCP server that pipes an LLM-controlled tool argument into a shell-spawning API (child_process.exec, util.promisify(exec), subprocess.run(shell=True), os.system, os.popen) without sanitization. An attacker controlling the LLM input can inject shell metacharacters and execute arbitrary code on the host running the MCP server.

$ mcp-audit source-scan ./packages/my-mcp-server

MCP source-scan: packages/my-mcp-server
1 critical · 0 high · 1 finding(s) total

  Severity  Conf  File:Line      API                                          Snippet
  CRITICAL  high  server.js:19   util.promisify(child_process.exec) ...       const { stdout } = await execAsync(

Outputs:

• --format table (default, human-readable)

FAQ

Q: What does scan look at? A: README says it inventories MCP server configurations and summarizes access.

Q: When should I use source-scan? A: Use it for in-house or unverified servers to catch code-level risks.

Q: What output fits CI? A: JSON for parsing, or SARIF/CycloneDX when integrating with security tooling.