Update documentation and fix MCP plugin

[h3xxit]

Summary by cubic

Switch MCP transport to MCPClient with reusable sessions and add optional resource-to-tool registration for MCP servers. Also prefix MCP tool names with the server name and require Python 3.11+; plugin logs now show by default.

• New Features

  • Use MCPClient with session reuse for faster, more reliable MCP calls.
  • Optional register_resources_as_tools to expose MCP resources as callable tools (resource_); supports reading resources.
  • Prefix MCP tool names with the server name (e.g., server.echo) to avoid collisions.
  • Robust tool/resource name parsing for manual/server prefixes.
  • Deregister/close now clean up MCP sessions.
  • Default logging added in protocol plugins (CLI, HTTP, SSE, GQL, TCP, Text) so logs appear without user config.

• Migration

  • Python 3.11+ is required (CI and MCP plugin updated).
  • Update MCP tool calls and tests to use the server-prefixed names (e.g., my_server.echo). Resource tools use my_server.resource_.

[cubic-dev-ai]

14 issues found across 17 files

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