Integrate cleanup into pipeline execution

docs/cli.md

@@ -153,7 +153,7 @@ Behavior:
 
 - evaluates one inclusive contiguous range of the canonical stage order;
 - defaults an omitted `--from` to `prepare` and an omitted `--through` to
-  `notify`, so omitting both retains full-pipeline behavior;
+  `cleanup`, so omitting both retains full-pipeline behavior;
 - rejects unknown endpoints and a `--from` endpoint after `--through`;
 - runs `render` before `extract`; an omitted or disabled Notarius
   configuration records an explicit `notarius_disabled` self-skip;
@@ -213,6 +213,7 @@ Valid stage names:
 - `analyze`
 - `publish`
 - `notify`
+- `cleanup`
 
 Rules:
 
@@ -242,6 +243,10 @@ Equivalent to:
 narratio run-stage publish <session_id> --force [...common config flags]
 ```
 
+This command selects only `publish`; it does not invoke cleanup. Use a normal
+full run to include configured cleanup, or `run-stage cleanup` to retry cleanup
+from valid publication evidence.
+
 ### `clean`
 
 ```bash
@@ -255,8 +260,8 @@ Behavior:
 - `--all` removes all local session work and spool state;
 - cache remains unless `--clear-cache` is provided.
 
-See [Operations: Cleanup](./operations.md#cleanup) for deletion scope and
-post-publish cleanup behavior.
+See [Operations: Cleanup](./operations.md#cleanup) for manual and pipeline-stage
+deletion scope.
 
 ### `session plan`