Reorganize packages into a modular hierarchy

Move the 18 flat packages/<name> packages into role-grouped dirs:
core/, llm/, bash/, session-persistence/, ui/, support/. Group dirs are
pure containers; each package keeps its @deepseek-ai/dsh-* name.

Collapse the per-package tsconfig paths maps (base + typecheck) into one
@deepseek-ai/dsh-* wildcard with a candidate per group, and derive the
publint list from the hierarchy. Update all depth-coupled globs/configs
(workspace, tsdown, vitest, eslint, knip, tsconfig includes/refs,
per-package tsconfigs, generators, doc-script scopes, type-equiv manifest)
and the cross-package/script relative imports in tests.

Fix doc-typecheck's workspacePaths() to parse tsconfig JSONC via the
TypeScript API instead of a regex comment-strip, which corrupted the
new wildcard `/*/` path candidates.

WIP: doc cross-links and package/RFC docs still to update.

packages/core/agent-loop/package.json

@@ -0,0 +1,45 @@
+{
+  "name": "@deepseek-ai/dsh-agent-loop",
+  "description": "The concrete agent loop plugin for the DeepSeek Harness",
+  "version": "0.0.1",
+  "private": true,
+  "type": "module",
+  "main": "lib/index.js",
+  "types": "lib/index.d.ts",
+  "exports": {
+    ".": {
+      "types": "./lib/index.d.ts",
+      "default": "./lib/index.js"
+    },
+    "./src/*": "./src/*",
+    "./package.json": "./package.json"
+  },
+  "files": [
+    "lib",
+    "src"
+  ],
+  "license": "BSD-3-Clause",
+  "peerDependencies": {
+    "@deepseek-ai/dsh-agent": "^0.0.1",
+    "@deepseek-ai/dsh-llm": "^0.0.1",
+    "@deepseek-ai/dsh-session": "^0.0.1",
+    "@deepseek-ai/dsh-session-persistence": "^0.0.1",
+    "@deepseek-ai/dsh-system-prompt": "^0.0.1",
+    "@deepseek-ai/dsh-tools": "^0.0.1",
+    "cordis": "^4.0.0-rc.6"
+  },
+  "dependencies": {
+    "schemastery": "^3.18.0"
+  },
+  "devDependencies": {
+    "@deepseek-ai/dsh-agent": "workspace:^",
+    "@deepseek-ai/dsh-invariants": "workspace:^",
+    "@deepseek-ai/dsh-llm": "workspace:^",
+    "@deepseek-ai/dsh-session": "workspace:^",
+    "@deepseek-ai/dsh-session-persistence": "workspace:^",
+    "@deepseek-ai/dsh-session-persistence-jsonl": "workspace:^",
+    "@deepseek-ai/dsh-system-prompt": "workspace:^",
+    "@deepseek-ai/dsh-tools": "workspace:^",
+    "cordis": "^4.0.0-rc.6"
+  }
+}