feat: initialize Hypothesis Machine Pi extension

.github/ISSUE_TEMPLATE/bug_report.yml

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+name: Bug report
+description: Report reproducible incorrect behavior
+title: "[Bug]: "
+labels: [bug]
+body:
+  - type: markdown
+    attributes:
+      value: Do not report security vulnerabilities here; follow SECURITY.md.
+  - type: input
+    id: version
+    attributes:
+      label: Hypothesis Machine and Pi versions
+      placeholder: Hypothesis Machine 0.1.1, Pi 0.83.0
+    validations:
+      required: true
+  - type: dropdown
+    id: area
+    attributes:
+      label: Area
+      options:
+        - Pi extension loading
+        - Recursive agents
+        - Research memory
+        - Web gateway
+        - Research loop
+        - Experiment runner
+        - Documentation or other
+    validations:
+      required: true
+  - type: textarea
+    id: description
+    attributes:
+      label: What happened?
+      description: Include the expected result and a minimal reproduction.
+    validations:
+      required: true
+  - type: textarea
+    id: logs
+    attributes:
+      label: Sanitized logs
+      description: Remove credentials, private sources, and model transcripts.
+      render: shell
+  - type: checkboxes
+    id: checks
+    attributes:
+      label: Safety checks
+      options:
+        - label: I removed credentials and private data from this report.
+          required: true
+        - label: This is not a privately reportable security vulnerability.
+          required: true

.github/ISSUE_TEMPLATE/config.yml

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+blank_issues_enabled: false

.github/ISSUE_TEMPLATE/feature_request.yml

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+name: Feature request
+description: Propose a focused extension improvement
+title: "[Feature]: "
+labels: [enhancement]
+body:
+  - type: textarea
+    id: problem
+    attributes:
+      label: Problem
+      description: What research workflow is currently difficult or impossible?
+    validations:
+      required: true
+  - type: textarea
+    id: proposal
+    attributes:
+      label: Proposed behavior
+      description: Explain how this should integrate with official Pi capabilities.
+    validations:
+      required: true
+  - type: textarea
+    id: alternatives
+    attributes:
+      label: Alternatives and tradeoffs
+  - type: checkboxes
+    id: scope
+    attributes:
+      label: Scope
+      options:
+        - label: This does not require a Pi fork or a separate chat/TUI application.
+          required: true

.github/dependabot.yml

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+version: 2
+updates:
+  - package-ecosystem: npm
+    directory: /
+    schedule:
+      interval: weekly
+    open-pull-requests-limit: 5
+  - package-ecosystem: github-actions
+    directory: /
+    schedule:
+      interval: weekly
+    open-pull-requests-limit: 5

.github/pull_request_template.md

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+## Summary
+
+Describe the user-visible result and why it is needed.
+
+## Verification
+
+- [ ] `npm run check`
+- [ ] `docker compose -f infra/compose.yaml config --quiet`
+- [ ] Tests cover changed behavior
+- [ ] `CHANGELOG.md` is updated when behavior is user-visible
+
+## Security and data
+
+- [ ] No credentials, runtime state, fetched private sources, or model transcripts are included
+- [ ] Web, filesystem, session, and container boundaries were reviewed where relevant
+- [ ] The agent layer still depends only on official Pi packages

.github/workflows/ci.yml

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+name: CI
+
+on:
+  push:
+    branches: [main]
+  pull_request:
+
+permissions:
+  contents: read
+
+concurrency:
+  group: ci-${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: true
+
+jobs:
+  test:
+    runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        node: [22, 24]
+    steps:
+      - uses: actions/checkout@v6
+      - uses: actions/setup-node@v6
+        with:
+          node-version: ${{ matrix.node }}
+          cache: npm
+      - run: npm ci --ignore-scripts
+      - run: npm run typecheck
+      - run: npm run lint
+      - run: npm test
+      - run: npm run build
+      - run: npm run smoke
+      - run: docker compose -f infra/compose.yaml config --quiet
+      - if: matrix.node == 22
+        run: npm pack --dry-run

.github/workflows/codeql.yml

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+name: CodeQL
+
+on:
+  push:
+    branches: [main]
+  pull_request:
+    branches: [main]
+  schedule:
+    - cron: "17 4 * * 1"
+
+permissions:
+  contents: read
+  security-events: write
+
+jobs:
+  analyze:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v6
+      - uses: github/codeql-action/init@v4
+        with:
+          languages: javascript-typescript
+      - uses: github/codeql-action/analyze@v4