Changelog, minor fixes

CHANGELOG.md

@@ -13,16 +13,15 @@ Status of the `main` branch. Changes prior to the next official version change w
 * Memories:
   - Memories can now reference each other using the `` `mem:NAME` `` convention. Renames
     propagate to all references automatically. See the [reference convention](https://oraios.github.io/serena/02-usage/045_memories.html#referencing-memories-from-other-memories).
-  - New `serena memories` CLI command group: `list`, `read`, `write`, `check` (referential
-    integrity report) and `auto-prefix-references` (heuristic rewrite of bare occurrences).
-    See the [CLI subcommands](https://oraios.github.io/serena/02-usage/045_memories.html#cli-subcommands).
   - Onboarding now seeds a `memory_maintenance` memory describing the memory-style and
     routing conventions, and the agent is instructed to read it before writing any other
     memories. A `global/memory_maintenance` memory takes precedence over the per-project
     seed. See the [memory maintenance section](https://oraios.github.io/serena/02-usage/045_memories.html#the-memory-maintenance-memory).
-  - Onboarding prompt rewritten to target a layout of `mem:core` (routing entry point),
-    `mem:suggested_commands`, `mem:tech_stack`, `mem:conventions`, `mem:task_completion`,
-    and optional per-module `mem:<module>/core` memories, using dense agent-notes style.
+
+* CLI:
+  - Add `serena memories` CLI command group: `list`, `read`, `write`, `check` (referential
+    integrity report) and `auto-prefix-references` (heuristic rewrite of bare occurrences).
+    See the [CLI subcommands](https://oraios.github.io/serena/02-usage/045_memories.html#cli-subcommands).
 
 * Tools:
   - `edit_memory`: New `dotall` parameter (default `False`) controlling whether ``.`` matches
@@ -31,6 +30,7 @@ Status of the `main` branch. Changes prior to the next official version change w
     avoids accidentally consuming large spans of content. Pass `dotall=True` for multi-line edits.
   - `search_for_pattern`: New `dotall` parameter (default `True`, preserving existing behavior)
     exposing the DOTALL flag, and the docstring was tightened.
+  - Delete `check_onboarding_performed` tool (instead extend project activation message),
 
 # v1.3.0 (2026-05-11)
 

docs/02-usage/045_memories.md

@@ -4,6 +4,7 @@ Serena provides the functionality of a fully featured agent, and a useful aspect
 Despite its simplicity, we received positive feedback from many users who tend to combine it with their
 agent's internal memory management (e.g., `AGENTS.md` files).
 
+(memories)=
 ## Memories
 
 Memories are simple, human-readable Markdown files that both you and
@@ -45,10 +46,10 @@ criteria:
    prefix for references to memories, which does not prevent using the memory files outside
    of Serena.
 7. **Configurable and composable.** Two orthogonal memory scopes -
-   [per-project](#memories) (committed alongside the code) and [global](global-memories)
+   [per-project](memories) (committed alongside the code) and [global](global-memories)
    (shared across all your projects) - can be combined freely. Within either scope,
    regex patterns in the global or project configuration can mark subsets as read-only
-   or [hide them entirely](#ignoring-memories) from the agent. This lets a project mix
+   or [hide them entirely](ignoring-memories) from the agent. This lets a project mix
    personal cross-project knowledge with checked-in project conventions, and selectively
    freeze either set, without custom plumbing.
 
@@ -103,6 +104,7 @@ Since global memories are not versioned alongside your project files,
 it can be helpful to track global memories with git (i.e. to make `~/.serena/memories/` a git repository)
 in order to have a history of changes and the possibility to revert them if needed.
 
+(ignoring-memories)=
 ### Ignoring Memories
 
 Projects that accumulate large numbers of archived memory files can use `ignored_memory_patterns`

pyproject.toml

@@ -361,7 +361,7 @@ markers = [
 
 [tool.codespell]
 # Ref: https://github.com/codespell-project/codespell#using-a-config-file
-skip = '.git*,*.svg,*.lock,*.min.*'
+skip = '.git*,*.svg,*.lock,*.min.*,*test_memories_manager.py'
 check-hidden = true
 ignore-regex = '\.\w+'
 ignore-words-list = 'paket,EDN,als'