refactor: reorganize notes skills and update bash script paths (#338)

Updated notes skill structure and permissions

This PR reorganizes the notes functionality by:

1. Moving note scripts to a shared directory structure (`.claude/skills/_shared/notes/`)
2. Adding new note utility scripts:
   - `list-topics.sh`
   - `summarize-notes.sh`
   - `echo-notes-dir.sh`
3. Replacing the general skills with more specific note-focused skills:
   - Added: `note-capture`, `note-find`, `note-list`, `note-organize`, `note-overview`, `note-refine`, `note-review`
   - Removed: `idea-refine`, `scratch-capture`, `scratch-review`

These changes provide more granular control over note management capabilities.

Author: jumski

.claude/settings.json

@@ -36,8 +36,11 @@
       "Bash(rm:./.notes/scratch/*)",
       "Bash(mv:./.notes/*)",
       "Bash(cat:./.notes/*)",
-      "Bash(./.claude/skills/notes/scripts/search:*)",
-      "Bash(./.claude/skills/notes/scripts/list-titles:*)",
+      "Bash(./.claude/skills/_shared/notes/search-notes.sh:*)",
+      "Bash(./.claude/skills/_shared/notes/list-titles.sh:*)",
+      "Bash(./.claude/skills/_shared/notes/list-topics.sh:*)",
+      "Bash(./.claude/skills/_shared/notes/summarize-notes.sh:*)",
+      "Bash(./.claude/skills/_shared/notes/echo-notes-dir.sh:*)",
       "Bash(git -C ./.notes add:*)",
       "Bash(git -C ./.notes commit:*)",
       "Bash(git -C ./.notes push:*)",
@@ -46,13 +49,17 @@
       "Read(./.notes/**)",
       "Write(./.notes/**)",
       "Edit(./.notes/**)",
-      "Skill(idea-refine)",
       "Skill(migration-management)",
+      "Skill(note-capture)",
+      "Skill(note-find)",
+      "Skill(note-list)",
+      "Skill(note-organize)",
+      "Skill(note-overview)",
+      "Skill(note-refine)",
+      "Skill(note-review)",
       "Skill(notes-sync)",
       "Skill(pgtap-testing)",
       "Skill(schema-dev)",
-      "Skill(scratch-capture)",
-      "Skill(scratch-review)",
       "Skill(unblock)",
       "AskUserQuestion",
       "WebSearch",