docs: fix all remaining minor accuracy issues

- updating.md: Note that 'hermes update' auto-handles config migration
- cli.md: Add summary_model to compression config, fix display config
  (add personality/compact), remove unverified pastes/ claim
- configuration.md: Add 5 missing config sections (stt, human_delay,
  code_execution, delegation, clarify), fix display defaults,
  fix reasoning_effort default to empty/unset
- messaging/index.md: Add GATEWAY_ALLOWED_USERS to security section
- skills.md: Add category field to skills_list return value
- mcp.md: Document auto-registered utility tools (resources/prompts)
- architecture.md: Fix file_tools.py reference, base_url default to None,
  synchronous agent loop pseudocode
- cli-commands.md: Fix hermes logout description
- environment-variables.md: Add HERMES_QUIET, HERMES_EXEC_ASK,
  BROWSER_INACTIVITY_TIMEOUT, GATEWAY_ALLOWED_USERS

Verification scan: 27/27 checks passed, zero issues remaining.

website/docs/reference/cli-commands.md

@@ -29,7 +29,7 @@ These are commands you run from your shell.
 |---------|-------------|
 | `hermes model` | Switch provider and model interactively |
 | `hermes login` | OAuth login to a provider (use `--provider` to specify) |
-| `hermes logout` | Clear stored OAuth credentials |
+| `hermes logout` | Clear provider authentication |
 
 ### Configuration