Markdown Vault MCP

Paste it into your assistant. It asks for the manifest, the server wiring and the skills, and for an honest account of what this record does not say. Read that second file first.

Draft an Agent Plugin (agent-plugins.org, specification 1.1.0) that wraps the
MCP server described below, so that somebody could install one thing and have
an assistant that knows when and how to use it.

An Agent Plugin is one installable unit: a `plugin.json` manifest, an
`mcp.json` that wires up the servers it needs, and a `skills/` directory
where each skill is a folder holding a `SKILL.md`. Hand back every file in
full, each under its own path, ready to save.

1. Write `plugin.json` with `$schema` exactly `https://agent-plugins.org/schemas/1.1.0/plugin.schema.json`. The name is
   1 to 64 characters of a-z, 0-9, `-` and `.`, alphanumeric at both ends, with
   no `--` and no `..` in it.

2. Write `mcp.json` wiring THIS server exactly as its record declares it. A
   remote keeps the URL and the transport type as written. A package keeps the
   registry, the identifier and the version as written. Do not invent a command,
   a port, a flag or an argument that is not in the record.

3. Every secret stays an input. No key, token, password or connection string
   belongs in either file. Declare what has to be supplied, name it, and say what
   it is for.

4. Do not invent tools. The record lists the tools it lists, and if it lists
   none then the honest plugin says the tool list was not published rather than
   guessing one from the description.

5. Skills are jobs, not tools. Write one skill per thing somebody would actually
   ask for, and inside each one say when to reach for this server, what a good
   result looks like, and what to do when it comes back empty. A skill per tool
   is a manual page with a different filename.

6. Say where it stops. Name what this plugin will not do — what it has no tool
   for, what needs a person, and what it must not be pointed at. A plugin with no
   stated edge reads as one with no edge.

7. Keep the author's own words for the description. If you would rather say it
   differently, say yours somewhere else and leave theirs where it is.

8. Record which version of the server you wrapped, and where the record came
   from, at the top of `plugin.json`'s description or in the readme. A plugin
   nobody can trace back to a version is one nobody can update.

Produce a second file alongside them, `LIMITS.md`, and treat it as the more
important of the two. The plugin is for whoever installs it. This is for
whoever has to decide whether installing it is a good idea, and that is
usually a different person who will never read the manifest.

It has three parts.

**What this is built from.** One paragraph: whose server it is, what the
record says it does, which version, and the fact that the record is all you
had. Say plainly that nobody ran it.

**What the record does not say.** One entry per gap. Whether the tool list was
published. What the server does with what it reads. What it costs. Whether it
writes anything anywhere. What credentials it will ask for and what those
credentials can reach. An unanswered question stays an unanswered question:
do not fill one in from the description or from what similar servers usually do.

**What a person has to check before trusting it.** The specific things
somebody should verify for themselves, in the order that would stop them
soonest if the answer is bad.

Write it in plain English, and do not soften it. A plugin drafted from a
directory record is a starting point to argue with, not something to install
into anything that matters.

The server record follows, exactly as the public index holds it. It is
everything I have: nobody has run this server, called a tool on it, or checked
that the address answers.

```json
{
  "server": {
    "$schema": "https://static.modelcontextprotocol.io/schemas/2025-12-11/server.schema.json",
    "name": "io.github.pvliesdonk/markdown-vault-mcp",
    "description": "Markdown vault MCP server with FTS5 + semantic search and frontmatter indexing",
    "title": "Markdown Vault MCP",
    "repository": {
      "url": "https://github.com/pvliesdonk/markdown-vault-mcp",
      "source": "github"
    },
    "version": "3.1.0",
    "websiteUrl": "https://pvliesdonk.github.io/markdown-vault-mcp/",
    "packages": [
      {
        "registryType": "pypi",
        "identifier": "markdown-vault-mcp",
        "version": "3.1.0",
        "runtimeHint": "uvx",
        "transport": {
          "type": "stdio"
        },
        "environmentVariables": [
          {
            "description": "Absolute path to the markdown vault directory",
            "isRequired": true,
            "format": "filepath",
            "name": "MARKDOWN_VAULT_MCP_SOURCE_DIR"
          },
          {
            "description": "Disable write tools",
            "format": "boolean",
            "default": "true",
            "name": "MARKDOWN_VAULT_MCP_READ_ONLY"
          },
          {
            "description": "Log level for FastMCP internals; app loggers default to INFO, -v overrides both to DEBUG",
            "default": "INFO",
            "choices": [
              "DEBUG",
              "INFO",
              "WARNING",
              "ERROR"
            ],
            "name": "FASTMCP_LOG_LEVEL"
          },
          {
            "description": "Unified key-value backend for HTTP session persistence (file:///path or memory://). Legacy alias: MARKDOWN_VAULT_MCP_EVENT_STORE_URL",
            "default": "file:///data/state",
            "name": "MARKDOWN_VAULT_MCP_KV_STORE_URL"
          },
          {
            "description": "MCP server name shown to clients",
            "default": "markdown-vault-mcp",
            "name": "MARKDOWN_VAULT_MCP_SERVER_NAME"
          },
          {
            "description": "Directory for index and embeddings state files",
            "format": "filepath",
            "name": "MARKDOWN_VAULT_MCP_STATE_PATH"
          },
          {
            "description": "Path to the FTS5 SQLite index file",
            "format": "filepath",
            "name": "MARKDOWN_VAULT_MCP_INDEX_PATH"
          },
          {
            "description": "Path to the numpy embeddings file",
            "format": "filepath",
            "name": "MARKDOWN_VAULT_MCP_EMBEDDINGS_PATH"
          },
          {
            "description": "Comma-separated frontmatter fields to index for search",
            "name": "MARKDOWN_VAULT_MCP_INDEXED_FIELDS"
          },
          {
            "description": "Comma-separated frontmatter fields required on every document",
            "name": "MARKDOWN_VAULT_MCP_REQUIRED_FIELDS"
          },
          {
            "description": "Comma-separated glob patterns to exclude from indexing",
            "name": "MARKDOWN_VAULT_MCP_EXCLUDE"
          },
          {
            "description": "Embedding provider to use",
            "choices": [
              "openai",
              "ollama",
              "fastembed",
              "fastembed-gpu"
            ],
            "name": "MARKDOWN_VAULT_MCP_EMBEDDING_PROVIDER"
          },
          {
            "description": "OpenAI API key (required when MARKDOWN_VAULT_MCP_EMBEDDING_PROVIDER=openai)",
            "isSecret": true,
            "name": "OPENAI_API_KEY"
          },
          {
            "description": "OpenAI-compatible API base URL (e.g. SiliconFlow, Together, internal gateways); also accepts MARKDOWN_VAULT_MCP_OPENAI_BASE_URL",
            "default": "https://api.openai.com/v1",
            "name": "OPENAI_BASE_URL"
          },
          {
            "description": "OpenAI-compatible embedding model name; also accepts MARKDOWN_VAULT_MCP_OPENAI_EMBEDDING_MODEL",
            "default": "text-embedding-3-small",
            "name": "OPENAI_EMBEDDING_MODEL"
          },
          {
            "description": "Ollama embedding model name",
            "default": "nomic-embed-text",
            "name": "MARKDOWN_VAULT_MCP_OLLAMA_MODEL"
          },
          {
            "description": "Force CPU-only inference for Ollama",
            "format": "boolean",
            "default": "false",
            "name": "MARKDOWN_VAULT_MCP_OLLAMA_CPU_ONLY"
          },
          {
            "description": "Ollama server base URL",
            "default": "http://localhost:11434",
            "name": "OLLAMA_HOST"
          },
          {
            "description": "Git authentication token for push/pull",
            "isSecret": true,
            "name": "MARKDOWN_VAULT_MCP_GIT_TOKEN"
          },
          {
            "description": "Remote git repository URL for managed mode",
            "name": "MARKDOWN_VAULT_MCP_GIT_REPO_URL"
          },
          {
            "description": "Git username for token auth",
            "default": "x-access-token",
            "name": "MARKDOWN_VAULT_MCP_GIT_USERNAME"
          },
          {
            "description": "Git committer name",
            "default": "markdown-vault-mcp",
            "name": "MARKDOWN_VAULT_MCP_GIT_COMMIT_NAME"
          },
          {
            "description": "Git committer email",
            "default": "noreply@markdown-vault-mcp",
            "name": "MARKDOWN_VAULT_MCP_GIT_COMMIT_EMAIL"
          },
          {
            "description": "Seconds to wait before pushing (batches writes)",
            "format": "number",
            "default": "30",
            "name": "MARKDOWN_VAULT_MCP_GIT_PUSH_DELAY_S"
          },
          {
            "description": "Enable Git LFS support",
            "format": "boolean",
            "default": "true",
            "name": "MARKDOWN_VAULT_MCP_GIT_LFS"
          },
          {
            "description": "Seconds between periodic git pulls (0 to disable)",
            "format": "number",
            "default": "600",
            "name": "MARKDOWN_VAULT_MCP_GIT_PULL_INTERVAL_S"
          },
          {
            "description": "Comma-separated allowed attachment extensions, or * for all",
            "name": "MARKDOWN_VAULT_MCP_ATTACHMENT_EXTENSIONS"
          },
          {
            "description": "Maximum attachment size in MB (0 for unlimited)",
            "format": "number",
            "default": "10",
            "name": "MARKDOWN_VAULT_MCP_MAX_ATTACHMENT_SIZE_MB"
          },
          {
            "description": "Folder name for note templates within the vault",
            "default": "_templates",
            "name": "MARKDOWN_VAULT_MCP_TEMPLATES_FOLDER"
          },
          {
            "description": "Path to user-defined MCP prompt templates",
            "format": "filepath",
            "name": "MARKDOWN_VAULT_MCP_PROMPTS_FOLDER"
          },
          {
            "description": "Bearer token for authentication",
            "isSecret": true,
            "name": "MARKDOWN_VAULT_MCP_BEARER_TOKEN"
          },
          {
            "description": "OIDC auth mode: 'remote' (JWKS validation) or 'oidc-proxy' (OAuth proxy). Auto-detected if not set.",
            "name": "MARKDOWN_VAULT_MCP_AUTH_MODE"
          },
          {
            "description": "Public base URL of this server (required for OIDC)",
            "name": "MARKDOWN_VAULT_MCP_BASE_URL"
          },
          {
            "description": "OIDC discovery endpoint URL",
            "name": "MARKDOWN_VAULT_MCP_OIDC_CONFIG_URL"
          },
          {
            "description": "OIDC client ID",
            "name": "MARKDOWN_VAULT_MCP_OIDC_CLIENT_ID"
          },
          {
            "description": "OIDC client secret",
            "isSecret": true,
            "name": "MARKDOWN_VAULT_MCP_OIDC_CLIENT_SECRET"
          },
          {
            "description": "Signing key for OIDC session JWTs (critical on Linux/Docker)",
            "isSecret": true,
            "name": "MARKDOWN_VAULT_MCP_OIDC_JWT_SIGNING_KEY"
          },
          {
            "description": "Expected OIDC token audience",
            "name": "MARKDOWN_VAULT_MCP_OIDC_AUDIENCE"
          },
          {
            "description": "Space-separated required OIDC scopes",
            "default": "openid",
            "name": "MARKDOWN_VAULT_MCP_OIDC_REQUIRED_SCOPES"
          },
          {
            "description": "Verify access token JWT instead of id_token",
            "format": "boolean",
            "default": "false",
            "name": "MARKDOWN_VAULT_MCP_OIDC_VERIFY_ACCESS_TOKEN"
          },
          {
            "description": "Override Claude app domain for MCP Apps iframe sandboxing",
            "name": "MARKDOWN_VAULT_MCP_APP_DOMAIN"
          }
        ]
      },
      {
        "registryType": "oci",
        "identifier": "ghcr.io/pvliesdonk/markdown-vault-mcp:v3.1.0",
        "transport": {
          "type": "streamable-http",
          "url": "http://localhost:{--port}/mcp"
        },
        "packageArguments": [
          {
            "description": "Port for the HTTP transport",
            "default": "8000",
            "type": "named",
            "name": "--port"
          }
        ],
        "environmentVariables": [
          {
            "description": "Path to the vault directory inside the container",
            "format": "filepath",
            "default": "/data/vault",
            "name": "MARKDOWN_VAULT_MCP_SOURCE_DIR"
          },
          {
            "description": "Disable write tools",
            "format": "boolean",
            "default": "true",
            "name": "MARKDOWN_VAULT_MCP_READ_ONLY"
          },
          {
            "description": "Log level for FastMCP internals; app loggers default to INFO, -v overrides both to DEBUG",
            "default": "INFO",
            "choices": [
              "DEBUG",
              "INFO",
              "WARNING",
              "ERROR"
            ],
            "name": "FASTMCP_LOG_LEVEL"
          },
          {
            "description": "Persistent-state backend URL for pvl-core subsystems. Schemes: file:///path (survives restarts), memory:// (dev/ephemeral).",
            "default": "file:///data/state",
            "name": "MARKDOWN_VAULT_MCP_KV_STORE_URL"
          },
          {
            "description": "MCP server name shown to clients",
            "default": "markdown-vault-mcp",
            "name": "MARKDOWN_VAULT_MCP_SERVER_NAME"
          },
          {
            "description": "Directory for index and embeddings state files",
            "format": "filepath",
            "default": "/data/state",
            "name": "MARKDOWN_VAULT_MCP_STATE_PATH"
          },
          {
            "description": "Path to the FTS5 SQLite index file",
            "format": "filepath",
            "name": "MARKDOWN_VAULT_MCP_INDEX_PATH"
          },
          {
            "description": "Path to the numpy embeddings file",
            "format": "filepath",
            "name": "MARKDOWN_VAULT_MCP_EMBEDDINGS_PATH"
          },
          {
            "description": "Comma-separated frontmatter fields to index for search",
            "name": "MARKDOWN_VAULT_MCP_INDEXED_FIELDS"
          },
          {
            "description": "Comma-separated frontmatter fields required on every document",
            "name": "MARKDOWN_VAULT_MCP_REQUIRED_FIELDS"
          },
          {
            "description": "Comma-separated glob patterns to exclude from indexing",
            "name": "MARKDOWN_VAULT_MCP_EXCLUDE"
          },
          {
            "description": "Embedding provider to use",
            "choices": [
              "openai",
              "ollama",
              "fastembed",
              "fastembed-gpu"
            ],
            "name": "MARKDOWN_VAULT_MCP_EMBEDDING_PROVIDER"
          },
          {
            "description": "OpenAI API key (required when MARKDOWN_VAULT_MCP_EMBEDDING_PROVIDER=openai)",
            "isSecret": true,
            "name": "OPENAI_API_KEY"
          },
          {
            "description": "OpenAI-compatible API base URL (e.g. SiliconFlow, Together, internal gateways); also accepts MARKDOWN_VAULT_MCP_OPENAI_BASE_URL",
            "default": "https://api.openai.com/v1",
            "name": "OPENAI_BASE_URL"
          },
          {
            "description": "OpenAI-compatible embedding model name; also accepts MARKDOWN_VAULT_MCP_OPENAI_EMBEDDING_MODEL",
            "default": "text-embedding-3-small",
            "name": "OPENAI_EMBEDDING_MODEL"
          },
          {
            "description": "Ollama embedding model name",
            "default": "nomic-embed-text",
            "name": "MARKDOWN_VAULT_MCP_OLLAMA_MODEL"
          },
          {
            "description": "Force CPU-only inference for Ollama",
            "format": "boolean",
            "default": "false",
            "name": "MARKDOWN_VAULT_MCP_OLLAMA_CPU_ONLY"
          },
          {
            "description": "Ollama server base URL",
            "default": "http://localhost:11434",
            "name": "OLLAMA_HOST"
          },
          {
            "description": "Git authentication token for push/pull",
            "isSecret": true,
            "name": "MARKDOWN_VAULT_MCP_GIT_TOKEN"
          },
          {
            "description": "Remote git repository URL for managed mode",
            "name": "MARKDOWN_VAULT_MCP_GIT_REPO_URL"
          },
          {
            "description": "Git username for token auth",
            "default": "x-access-token",
            "name": "MARKDOWN_VAULT_MCP_GIT_USERNAME"
          },
          {
            "description": "Git committer name",
            "default": "markdown-vault-mcp",
            "name": "MARKDOWN_VAULT_MCP_GIT_COMMIT_NAME"
          },
          {
            "description": "Git committer email",
            "default": "noreply@markdown-vault-mcp",
            "name": "MARKDOWN_VAULT_MCP_GIT_COMMIT_EMAIL"
          },
          {
            "description": "Seconds to wait before pushing (batches writes)",
            "format": "number",
            "default": "30",
            "name": "MARKDOWN_VAULT_MCP_GIT_PUSH_DELAY_S"
          },
          {
            "description": "Enable Git LFS support",
            "format": "boolean",
            "default": "true",
            "name": "MARKDOWN_VAULT_MCP_GIT_LFS"
          },
          {
            "description": "Seconds between periodic git pulls (0 to disable)",
            "format": "number",
            "default": "600",
            "name": "MARKDOWN_VAULT_MCP_GIT_PULL_INTERVAL_S"
          },
          {
            "description": "Comma-separated allowed attachment extensions, or * for all",
            "name": "MARKDOWN_VAULT_MCP_ATTACHMENT_EXTENSIONS"
          },
          {
            "description": "Maximum attachment size in MB (0 for unlimited)",
            "format": "number",
            "default": "10",
            "name": "MARKDOWN_VAULT_MCP_MAX_ATTACHMENT_SIZE_MB"
          },
          {
            "description": "Folder name for note templates within the vault",
            "default": "_templates",
            "name": "MARKDOWN_VAULT_MCP_TEMPLATES_FOLDER"
          },
          {
            "description": "Path to user-defined MCP prompt templates",
            "format": "filepath",
            "name": "MARKDOWN_VAULT_MCP_PROMPTS_FOLDER"
          },
          {
            "description": "Run as this UID (Docker entrypoint)",
            "format": "number",
            "default": "1000",
            "name": "PUID"
          },
          {
            "description": "Run as this GID (Docker entrypoint)",
            "format": "number",
            "default": "1000",
            "name": "PGID"
          },
          {
            "description": "Bearer token for authentication",
            "isSecret": true,
            "name": "MARKDOWN_VAULT_MCP_BEARER_TOKEN"
          },
          {
            "description": "OIDC auth mode: 'remote' (JWKS validation) or 'oidc-proxy' (OAuth proxy). Auto-detected if not set.",
            "name": "MARKDOWN_VAULT_MCP_AUTH_MODE"
          },
          {
            "description": "Public base URL of this server (required for OIDC)",
            "name": "MARKDOWN_VAULT_MCP_BASE_URL"
          },
          {
            "description": "OIDC discovery endpoint URL",
            "name": "MARKDOWN_VAULT_MCP_OIDC_CONFIG_URL"
          },
          {
            "description": "OIDC client ID",
            "name": "MARKDOWN_VAULT_MCP_OIDC_CLIENT_ID"
          },
          {
            "description": "OIDC client secret",
            "isSecret": true,
            "name": "MARKDOWN_VAULT_MCP_OIDC_CLIENT_SECRET"
          },
          {
            "description": "Signing key for OIDC session JWTs (critical on Linux/Docker)",
            "isSecret": true,
            "name": "MARKDOWN_VAULT_MCP_OIDC_JWT_SIGNING_KEY"
          },
          {
            "description": "Expected OIDC token audience",
            "name": "MARKDOWN_VAULT_MCP_OIDC_AUDIENCE"
          },
          {
            "description": "Space-separated required OIDC scopes",
            "default": "openid",
            "name": "MARKDOWN_VAULT_MCP_OIDC_REQUIRED_SCOPES"
          },
          {
            "description": "Verify access token JWT instead of id_token",
            "format": "boolean",
            "default": "false",
            "name": "MARKDOWN_VAULT_MCP_OIDC_VERIFY_ACCESS_TOKEN"
          },
          {
            "description": "Override Claude app domain for MCP Apps iframe sandboxing",
            "name": "MARKDOWN_VAULT_MCP_APP_DOMAIN"
          }
        ]
      }
    ]
  },
  "_meta": {
    "io.modelcontextprotocol.registry/official": {
      "status": "active",
      "statusChangedAt": "2026-07-08T05:22:57.445285Z",
      "publishedAt": "2026-07-08T05:22:57.445285Z",
      "updatedAt": "2026-07-08T05:22:57.445285Z",
      "isLatest": true
    }
  }
}
```

The server is listed as "Markdown Vault MCP".