chore: remove redundant Makefile and .npmignore, fix .dockerignore

- Makefile: all useful targets duplicate package.json scripts, and
  referenced deleted e2e files. Use npm run instead.
- .npmignore: contained only node_modules/ which npm ignores by default.
- .dockerignore: remove stale paths (manuals/, third_party/, AGENTS.md,
  FUNCTIONAL_ISSUES_BACKLOG.md), add wiki/.

Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>

.dockerignore

@@ -11,7 +11,9 @@ node_modules/
 # Agent/Claude metadata (not needed at runtime)
 .agents/
 .claude/
-manuals/
+
+# Documentation (not needed at runtime)
+wiki/
 
 # IDE
 .vscode/
@@ -23,10 +25,3 @@ manuals/
 # OS
 .DS_Store
 Thumbs.db
-
-# Documentation (not needed at runtime)
-third_party/
-FUNCTIONAL_ISSUES_BACKLOG.md
-AGENTS.md
-README.md
-LICENSE