docs: add missing command reference entries

[thymikee]

Summary

Expand the commands reference page to explicitly document missing CLI entries, including wait/alert, assertions, tracing, runtime hints, device discovery, and session inspection.
Fix the assertions section to use selector-only is examples and explicitly note that snapshot refs are not supported.
Touched files: 1 (website/docs/docs/commands.md). Scope stayed within docs only.

Validation

Docs-only change; tests not run.

[github-actions]

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[chatgpt-codex-connector]

💡 Codex Review

agent-device/website/docs/docs/commands.md

Line 134 in 99f74a6

- `wait <selector> [timeoutMs]` and `wait @ref [timeoutMs]` poll until the target appears or the timeout expires.

Document wait @ref snapshot prerequisite and lookup semantics

The new docs say wait @ref [timeoutMs] polls until that target appears, but the implementation first requires an existing session snapshot (Ref wait requires an existing snapshot in session.) and then resolves the ref to a label/text before polling text matches, not the original node identity (src/daemon/handlers/snapshot.ts around lines 260-317). This wording can cause users to run wait @ref without a prior snapshot or to assume identity-based waiting, leading to confusing failures or false-positive waits when labels are duplicated.

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