chore: bump version to 0.7.3

.zenodo.json

@@ -1,29 +0,0 @@
-{
-  "title": "Spec Kit",
-  "description": "Spec Kit is an open source toolkit for Spec-Driven Development (SDD) — a methodology that helps software teams build high-quality software faster by focusing on product scenarios and predictable outcomes. It provides the Specify CLI, slash-command templates, extensions, presets, workflows, and integrations for popular AI coding agents.",
-  "creators": [
-    {
-      "name": "Delimarsky, Den"
-    },
-    {
-      "name": "Riem, Manfred"
-    }
-  ],
-  "license": "MIT",
-  "upload_type": "software",
-  "keywords": [
-    "spec-driven development",
-    "ai coding agents",
-    "software engineering",
-    "cli",
-    "copilot",
-    "specification"
-  ],
-  "related_identifiers": [
-    {
-      "identifier": "https://github.com/github/spec-kit",
-      "relation": "isSupplementTo",
-      "scheme": "url"
-    }
-  ]
-}

CHANGELOG.md

@@ -2,22 +2,6 @@
 
 <!-- insert new changelog below this comment -->
 
-## [0.7.4] - 2026-04-21
-
-### Changed
-
-- fix(copilot): use --yolo to grant all permissions in non-interactive mode (#2298)
-- feat: add CITATION.cff and .zenodo.json for academic citation support (#2291)
-- Add spec-validate to community catalog (#2274)
-- feat: register Ripple in community catalog (#2272)
-- Add version-guard to community catalog (#2286)
-- Add spec-reference-loader to community catalog (#2285)
-- Add memory-loader to community catalog (#2284)
-- fix(integrations): strip UTF-8 BOM when reading agent context files (#2283)
-- Preset fiction book writing1.6 (#2270)
-- fix(integrations): migrate Antigravity (agy) layout to .agents/ and deprecate --skills (#2276)
-- chore: release 0.7.3, begin 0.7.4.dev0 development (#2263)
-
 ## [0.7.3] - 2026-04-17
 
 ### Changed

CITATION.cff

@@ -1,31 +0,0 @@
-cff-version: 1.2.0
-message: >-
-  If you use Spec Kit in your research or reference it in a paper,
-  please cite it using the metadata below.
-type: software
-title: "Spec Kit"
-abstract: >-
-  Spec Kit is an open source toolkit for Spec-Driven Development (SDD) —
-  a methodology that helps software teams build high-quality software faster
-  by focusing on product scenarios and predictable outcomes. It provides the
-  Specify CLI, slash-command templates, extensions, presets, workflows, and
-  integrations for popular AI coding agents.
-authors:
-  - given-names: Den
-    family-names: Delimarsky
-    alias: localden
-  - given-names: Manfred
-    family-names: Riem
-    alias: mnriem
-repository-code: "https://github.com/github/spec-kit"
-url: "https://github.github.io/spec-kit/"
-license: MIT
-version: "0.7.3"
-date-released: "2026-04-17"
-keywords:
-  - spec-driven development
-  - ai coding agents
-  - software engineering
-  - cli
-  - copilot
-  - specification

README.md

@@ -223,7 +223,6 @@ The following community-contributed extensions are available in [`catalog.commun
 | MAQA Jira Integration | Jira integration for MAQA — syncs Stories and Subtasks as features progress through the board | `integration` | Read+Write | [spec-kit-maqa-jira](https://github.com/GenieRobot/spec-kit-maqa-jira) |
 | MAQA Linear Integration | Linear integration for MAQA — syncs issues and sub-issues across workflow states as features progress | `integration` | Read+Write | [spec-kit-maqa-linear](https://github.com/GenieRobot/spec-kit-maqa-linear) |
 | MAQA Trello Integration | Trello board integration for MAQA — populates board from specs, moves cards, real-time checklist ticking | `integration` | Read+Write | [spec-kit-maqa-trello](https://github.com/GenieRobot/spec-kit-maqa-trello) |
-| Memory Loader | Loads .specify/memory/ files before lifecycle commands so LLM agents have project governance context | `docs` | Read-only | [spec-kit-memory-loader](https://github.com/KevinBrown5280/spec-kit-memory-loader) |
 | MemoryLint | Agent memory governance tool: Automatically audits and fixes boundary conflicts between AGENTS.md and the constitution. | `process` | Read+Write | [memorylint](https://github.com/RbBtSn0w/spec-kit-extensions/tree/main/memorylint) |
 | Onboard | Contextual onboarding and progressive growth for developers new to spec-kit projects. Explains specs, maps dependencies, validates understanding, and guides the next step | `process` | Read+Write | [spec-kit-onboard](https://github.com/dmux/spec-kit-onboard) |
 | Optimize | Audit and optimize AI governance for context efficiency — token budgets, rule health, interpretability, compression, coherence, and echo detection | `process` | Read+Write | [spec-kit-optimize](https://github.com/sakitA/spec-kit-optimize) |
@@ -240,18 +239,15 @@ The following community-contributed extensions are available in [`catalog.commun
 | Retro Extension | Sprint retrospective analysis with metrics, spec accuracy assessment, and improvement suggestions | `process` | Read+Write | [spec-kit-retro](https://github.com/arunt14/spec-kit-retro) |
 | Retrospective Extension | Post-implementation retrospective with spec adherence scoring, drift analysis, and human-gated spec updates | `docs` | Read+Write | [spec-kit-retrospective](https://github.com/emi-dm/spec-kit-retrospective) |
 | Review Extension | Post-implementation comprehensive code review with specialized agents for code quality, comments, tests, error handling, type design, and simplification | `code` | Read-only | [spec-kit-review](https://github.com/ismaelJimenez/spec-kit-review) |
-| Ripple | Detect side effects that tests can't catch after implementation — delta-anchored analysis across 9 domain-agnostic categories | `code` | Read+Write | [spec-kit-ripple](https://github.com/chordpli/spec-kit-ripple) |
 | SDD Utilities | Resume interrupted workflows, validate project health, and verify spec-to-task traceability | `process` | Read+Write | [speckit-utils](https://github.com/mvanhorn/speckit-utils) |
 | Security Review | Comprehensive security audit of codebases using AI-powered DevSecOps analysis | `code` | Read-only | [spec-kit-security-review](https://github.com/DyanGalih/spec-kit-security-review) |
 | SFSpeckit | Enterprise Salesforce SDLC with 18 commands for the full SDD lifecycle. | `process` | Read+Write | [spec-kit-sf](https://github.com/ysumanth06/spec-kit-sf) |
 | Ship Release Extension | Automates release pipeline: pre-flight checks, branch sync, changelog generation, CI verification, and PR creation | `process` | Read+Write | [spec-kit-ship](https://github.com/arunt14/spec-kit-ship) |
-| Spec Reference Loader | Reads the ## References section from the feature spec and loads only the listed docs into context | `docs` | Read-only | [spec-kit-spec-reference-loader](https://github.com/KevinBrown5280/spec-kit-spec-reference-loader) |
 | Spec Critique Extension | Dual-lens critical review of spec and plan from product strategy and engineering risk perspectives | `docs` | Read-only | [spec-kit-critique](https://github.com/arunt14/spec-kit-critique) |
 | Spec Diagram | Auto-generate Mermaid diagrams of SDD workflow state, feature progress, and task dependencies | `visibility` | Read-only | [spec-kit-diagram-](https://github.com/Quratulain-bilal/spec-kit-diagram-) |
 | Spec Refine | Update specs in-place, propagate changes to plan and tasks, and diff impact across artifacts | `process` | Read+Write | [spec-kit-refine](https://github.com/Quratulain-bilal/spec-kit-refine) |
 | Spec Scope | Effort estimation and scope tracking — estimate work, detect creep, and budget time per phase | `process` | Read-only | [spec-kit-scope-](https://github.com/Quratulain-bilal/spec-kit-scope-) |
 | Spec Sync | Detect and resolve drift between specs and implementation. AI-assisted resolution with human approval | `docs` | Read+Write | [spec-kit-sync](https://github.com/bgervin/spec-kit-sync) |
-| Spec Validate | Comprehension validation, review gating, and approval state for spec-kit artifacts — staged quizzes, peer review SLA, and a hard gate before /speckit.implement | `process` | Read+Write | [spec-kit-spec-validate](https://github.com/aeltayeb/spec-kit-spec-validate) |
 | SpecTest | Auto-generate test scaffolds from spec criteria, map coverage, and find untested requirements | `code` | Read+Write | [spec-kit-spectest](https://github.com/Quratulain-bilal/spec-kit-spectest) |
 | Staff Review Extension | Staff-engineer-level code review that validates implementation against spec, checks security, performance, and test coverage | `code` | Read-only | [spec-kit-staff-review](https://github.com/arunt14/spec-kit-staff-review) |
 | Status Report | Project status, feature progress, and next-action recommendations for spec-driven workflows | `visibility` | Read-only | [Open-Agent-Tools/spec-kit-status](https://github.com/Open-Agent-Tools/spec-kit-status) |
@@ -260,7 +256,6 @@ The following community-contributed extensions are available in [`catalog.commun
 | V-Model Extension Pack | Enforces V-Model paired generation of development specs and test specs with full traceability | `docs` | Read+Write | [spec-kit-v-model](https://github.com/leocamello/spec-kit-v-model) |
 | Verify Extension | Post-implementation quality gate that validates implemented code against specification artifacts | `code` | Read-only | [spec-kit-verify](https://github.com/ismaelJimenez/spec-kit-verify) |
 | Verify Tasks Extension | Detect phantom completions: tasks marked [X] in tasks.md with no real implementation | `code` | Read-only | [spec-kit-verify-tasks](https://github.com/datastone-inc/spec-kit-verify-tasks) |
-| Version Guard | Verify tech stack versions against live npm registries before planning and implementation | `process` | Read-only | [spec-kit-version-guard](https://github.com/KevinBrown5280/spec-kit-version-guard) |
 | What-if Analysis | Preview the downstream impact (complexity, effort, tasks, risks) of requirement changes before committing to them | `visibility` | Read-only | [spec-kit-whatif](https://github.com/DevAbdullah90/spec-kit-whatif) |
 | Worktree Isolation | Spawn isolated git worktrees for parallel feature development without checkout switching | `process` | Read+Write | [spec-kit-worktree](https://github.com/Quratulain-bilal/spec-kit-worktree) |
 | Worktrees | Default-on worktree isolation for parallel agents — sibling or nested layout | `process` | Read+Write | [spec-kit-worktree-parallel](https://github.com/dango85/spec-kit-worktree-parallel) |
@@ -279,7 +274,7 @@ The following community-contributed presets customize how Spec Kit behaves — o
 | AIDE In-Place Migration | Adapts the AIDE extension workflow for in-place technology migrations (X → Y pattern) — adds migration objectives, verification gates, knowledge documents, and behavioral equivalence criteria | 2 templates, 8 commands | AIDE extension | [spec-kit-presets](https://github.com/mnriem/spec-kit-presets) |
 | Canon Core | Adapts original Spec Kit workflow to work together with Canon extension | 2 templates, 8 commands | — | [spec-kit-canon](https://github.com/maximiliamus/spec-kit-canon) |
 | Explicit Task Dependencies | Adds explicit `(depends on T###)` dependency declarations and an Execution Wave DAG to tasks.md for parallel scheduling | 1 template, 1 command | — | [spec-kit-preset-explicit-task-dependencies](https://github.com/Quratulain-bilal/spec-kit-preset-explicit-task-dependencies) |
-| Fiction Book Writing | It adapts the Spec-Driven Development workflow for storytelling to create books or audiobooks (with annotations) in 12 languages: features become story elements, specs become story briefs, plans become story structures, and tasks become scene-by-scene writing tasks. Supports single and multi-POV, all major plot structure frameworks, and two style modes: an author voice sample or humanized AI prose. Supports interactive elements like brainstorming, interview, roleplay and extras like statistics, cover builder and bio command. Export with templates for KDP, D2D etc. | 22 templates, 27 commands | — | [spec-kit-preset-fiction-book-writing](https://github.com/adaumann/speckit-preset-fiction-book-writing) |
+| Fiction Book Writing | It adapts the Spec-Driven Development workflow for storytelling to create books or audiobooks (with annotations): features become story elements, specs become story briefs, plans become story structures, and tasks become scene-by-scene writing tasks. Supports single and multi-POV, all major plot structure frameworks, and two style modes: an author voice sample or humanized AI prose with 5 prose profiles. Supports interactive elements like brainstorming, interview, roleplay. | 21 templates, 26 commands | — | [spec-kit-preset-fiction-book-writing](https://github.com/adaumann/speckit-preset-fiction-book-writing) |
 | Multi-Repo Branching | Coordinates feature branch creation across multiple git repositories (independent repos and submodules) during plan and tasks phases | 2 commands | — | [spec-kit-preset-multi-repo-branching](https://github.com/sakitA/spec-kit-preset-multi-repo-branching) |
 | Pirate Speak (Full) | Transforms all Spec Kit output into pirate speak — specs become "Voyage Manifests", plans become "Battle Plans", tasks become "Crew Assignments" | 6 templates, 9 commands | — | [spec-kit-presets](https://github.com/mnriem/spec-kit-presets) |
 | Table of Contents Navigation | Adds a navigable Table of Contents to generated spec.md, plan.md, and tasks.md documents | 3 templates, 3 commands | — | [spec-kit-preset-toc-navigation](https://github.com/Quratulain-bilal/spec-kit-preset-toc-navigation) |

extensions/catalog.community.json

@@ -1,6 +1,6 @@
 {
   "schema_version": "1.0",
-  "updated_at": "2026-04-21T00:00:00Z",
+  "updated_at": "2026-04-17T02:00:00Z",
   "catalog_url": "https://raw.githubusercontent.com/github/spec-kit/main/extensions/catalog.community.json",
   "extensions": {
     "aide": {
@@ -1167,37 +1167,6 @@
       "created_at": "2026-03-26T00:00:00Z",
       "updated_at": "2026-03-26T00:00:00Z"
     },
-    "memory-loader": {
-      "name": "Memory Loader",
-      "id": "memory-loader",
-      "description": "Loads .specify/memory/ files before spec-kit lifecycle commands so LLM agents have project governance context",
-      "author": "KevinBrown5280",
-      "version": "1.0.0",
-      "download_url": "https://github.com/KevinBrown5280/spec-kit-memory-loader/archive/refs/tags/v1.0.0.zip",
-      "repository": "https://github.com/KevinBrown5280/spec-kit-memory-loader",
-      "homepage": "https://github.com/KevinBrown5280/spec-kit-memory-loader",
-      "documentation": "https://github.com/KevinBrown5280/spec-kit-memory-loader/blob/main/README.md",
-      "changelog": "https://github.com/KevinBrown5280/spec-kit-memory-loader/blob/main/CHANGELOG.md",
-      "license": "MIT",
-      "requires": {
-        "speckit_version": ">=0.6.0"
-      },
-      "provides": {
-        "commands": 1,
-        "hooks": 7
-      },
-      "tags": [
-        "context",
-        "memory",
-        "governance",
-        "hooks"
-      ],
-      "verified": false,
-      "downloads": 0,
-      "stars": 0,
-      "created_at": "2026-04-20T00:00:00Z",
-      "updated_at": "2026-04-20T00:00:00Z"
-    },
     "memorylint": {
       "name": "MemoryLint",
       "id": "memorylint",
@@ -1688,38 +1657,6 @@
       "created_at": "2026-03-06T00:00:00Z",
       "updated_at": "2026-04-09T00:00:00Z"
     },
-    "ripple": {
-      "name": "Ripple",
-      "id": "ripple",
-      "description": "Detect side effects that tests can't catch after implementation — delta-anchored analysis across 9 domain-agnostic categories with fix-induced side effect detection",
-      "author": "chordpli",
-      "version": "1.0.0",
-      "download_url": "https://github.com/chordpli/spec-kit-ripple/archive/refs/tags/v1.0.0.zip",
-      "repository": "https://github.com/chordpli/spec-kit-ripple",
-      "homepage": "https://github.com/chordpli/spec-kit-ripple",
-      "documentation": "https://github.com/chordpli/spec-kit-ripple/blob/main/README.md",
-      "changelog": "https://github.com/chordpli/spec-kit-ripple/blob/main/CHANGELOG.md",
-      "license": "MIT",
-      "requires": {
-        "speckit_version": ">=0.2.0"
-      },
-      "provides": {
-        "commands": 3,
-        "hooks": 1
-      },
-      "tags": [
-        "side-effects",
-        "post-implementation",
-        "analysis",
-        "quality",
-        "risk-detection"
-      ],
-      "verified": false,
-      "downloads": 0,
-      "stars": 0,
-      "created_at": "2026-04-20T00:00:00Z",
-      "updated_at": "2026-04-20T00:00:00Z"
-    },
     "scope": {
       "name": "Spec Scope",
       "id": "scope",
@@ -1859,69 +1796,6 @@
       "created_at": "2026-04-01T00:00:00Z",
       "updated_at": "2026-04-01T00:00:00Z"
     },
-    "spec-reference-loader": {
-      "name": "Spec Reference Loader",
-      "id": "spec-reference-loader",
-      "description": "Reads the ## References section from the current feature spec and loads the listed files into context",
-      "author": "KevinBrown5280",
-      "version": "1.0.0",
-      "download_url": "https://github.com/KevinBrown5280/spec-kit-spec-reference-loader/archive/refs/tags/v1.0.0.zip",
-      "repository": "https://github.com/KevinBrown5280/spec-kit-spec-reference-loader",
-      "homepage": "https://github.com/KevinBrown5280/spec-kit-spec-reference-loader",
-      "documentation": "https://github.com/KevinBrown5280/spec-kit-spec-reference-loader/blob/main/README.md",
-      "changelog": "https://github.com/KevinBrown5280/spec-kit-spec-reference-loader/blob/main/CHANGELOG.md",
-      "license": "MIT",
-      "requires": {
-        "speckit_version": ">=0.6.0"
-      },
-      "provides": {
-        "commands": 1,
-        "hooks": 6
-      },
-      "tags": [
-        "context",
-        "references",
-        "docs",
-        "hooks"
-      ],
-      "verified": false,
-      "downloads": 0,
-      "stars": 0,
-      "created_at": "2026-04-20T00:00:00Z",
-      "updated_at": "2026-04-20T00:00:00Z"
-    },
-    "spec-validate": {
-      "name": "Spec Validate",
-      "id": "spec-validate",
-      "description": "Comprehension validation, review gating, and approval state for spec-kit artifacts — staged-reveal quizzes, peer review SLA, and a hard gate before /speckit.implement.",
-      "author": "Ahmed Eltayeb",
-      "version": "1.0.1",
-      "download_url": "https://github.com/aeltayeb/spec-kit-spec-validate/archive/refs/tags/v1.0.1.zip",
-      "repository": "https://github.com/aeltayeb/spec-kit-spec-validate",
-      "homepage": "https://github.com/aeltayeb/spec-kit-spec-validate",
-      "documentation": "https://github.com/aeltayeb/spec-kit-spec-validate/blob/main/README.md",
-      "changelog": "https://github.com/aeltayeb/spec-kit-spec-validate/blob/main/CHANGELOG.md",
-      "license": "MIT",
-      "requires": {
-        "speckit_version": ">=0.5.0"
-      },
-      "provides": {
-        "commands": 6,
-        "hooks": 3
-      },
-      "tags": [
-        "validation",
-        "review",
-        "quality",
-        "workflow",
-        "process"
-      ],
-      "verified": false,
-      "downloads": 0,
-      "stars": 0,
-      "created_at": "2026-04-20T00:00:00Z",
-      "updated_at": "2026-04-21T00:00:00Z"
-    },
     "speckit-utils": {
       "name": "SDD Utilities",
       "id": "speckit-utils",
@@ -2281,37 +2155,6 @@
       "created_at": "2026-03-16T00:00:00Z",
       "updated_at": "2026-03-16T00:00:00Z"
     },
-    "version-guard": {
-      "name": "Version Guard",
-      "id": "version-guard",
-      "description": "Verify tech stack versions against live registries before planning and implementation",
-      "author": "KevinBrown5280",
-      "version": "1.0.0",
-      "download_url": "https://github.com/KevinBrown5280/spec-kit-version-guard/archive/refs/tags/v1.0.0.zip",
-      "repository": "https://github.com/KevinBrown5280/spec-kit-version-guard",
-      "homepage": "https://github.com/KevinBrown5280/spec-kit-version-guard",
-      "documentation": "https://github.com/KevinBrown5280/spec-kit-version-guard/blob/main/README.md",
-      "changelog": "https://github.com/KevinBrown5280/spec-kit-version-guard/blob/main/CHANGELOG.md",
-      "license": "MIT",
-      "requires": {
-        "speckit_version": ">=0.2.0"
-      },
-      "provides": {
-        "commands": 1,
-        "hooks": 2
-      },
-      "tags": [
-        "versioning",
-        "npm",
-        "validation",
-        "hooks"
-      ],
-      "verified": false,
-      "downloads": 0,
-      "stars": 0,
-      "created_at": "2026-04-20T00:00:00Z",
-      "updated_at": "2026-04-20T00:00:00Z"
-    },
     "whatif": {
       "name": "What-if Analysis",
       "id": "whatif",

presets/catalog.community.json

@@ -108,11 +108,11 @@
     "fiction-book-writing": {
       "name": "Fiction Book Writing",
       "id": "fiction-book-writing",
-      "version": "1.6.0",
+      "version": "1.5.0",
-      "description": "Spec-Driven Development for novel and long-form fiction. 27 AI commands from idea to submission: story bible governance, 9 POV modes, all major plot structure frameworks, scene-by-scene drafting with quality gates, audiobook pipeline (SSML/ElevenLabs), cover design, sensitivity review, pacing and prose statistics, and pandoc-based export to DOCX/EPUB/LaTeX. Two style modes: author voice sample extraction or humanized-AI prose with 5 craft profiles. 12 languages supported.",
+      "description": "Spec-Driven Development for novel and long-form fiction. Replaces software engineering terminology with storytelling craft: specs become story briefs, plans become story structures, and tasks become scene-by-scene writing tasks. Supports 8 POV modes, all major plot structure frameworks, 5 humanized-AI prose profiles, and exports to DOCX/EPUB/LaTeX via pandoc.",
       "author": "Andreas Daumann",
       "repository": "https://github.com/adaumann/speckit-preset-fiction-book-writing",
-      "download_url": "https://github.com/adaumann/speckit-preset-fiction-book-writing/archive/refs/tags/v1.6.0.zip",
+      "download_url": "https://github.com/adaumann/speckit-preset-fiction-book-writing/archive/refs/tags/v1.5.0.zip",
       "homepage": "https://github.com/adaumann/speckit-preset-fiction-book-writing",
       "documentation": "https://github.com/adaumann/speckit-preset-fiction-book-writing/blob/main/fiction-book-writing/README.md",
       "license": "MIT",
@@ -120,9 +120,8 @@
         "speckit_version": ">=0.5.0"
       },
       "provides": {
-        "templates": 22,
+        "templates": 21,
-        "commands": 27,
+        "commands": 26
-        "scripts": 1
       },
       "tags": [
         "writing",
@@ -136,12 +135,11 @@
         "book",
         "brainstorming",
         "roleplay",
-        "audiobook",
+        "audiobook"
-        "language-support"
       ],
       "created_at": "2026-04-09T08:00:00Z",
-      "updated_at": "2026-04-19T08:00:00Z"
+      "updated_at": "2026-04-16T08:00:00Z"
-    },    
+    },
     "multi-repo-branching": {
       "name": "Multi-Repo Branching",
       "id": "multi-repo-branching",

pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "specify-cli"
-version = "0.7.4"
+version = "0.7.3"
 description = "Specify CLI, part of GitHub Spec Kit. A tool to bootstrap your projects for Spec-Driven Development (SDD)."
 requires-python = ">=3.11"
 dependencies = [

src/specify_cli/integrations/agy/__init__.py

@@ -1,18 +1,13 @@
 """Antigravity (agy) integration — skills-based agent.
 
-Antigravity uses ``.agents/skills/speckit-<name>/SKILL.md`` layout (enforced since v1.20.5).
+Antigravity uses ``.agent/skills/speckit-<name>/SKILL.md`` layout.
+Explicit command support was deprecated in version 1.20.5;
+``--skills`` defaults to ``True``.
 """
 
 from __future__ import annotations
 
-from pathlib import Path
+from ..base import IntegrationOption, SkillsIntegration
-from typing import TYPE_CHECKING, Any
-
-from ..base import SkillsIntegration
-
-if TYPE_CHECKING:
-    from ..manifest import IntegrationManifest
-
 
 
 class AgyIntegration(SkillsIntegration):
@@ -21,32 +16,26 @@ class AgyIntegration(SkillsIntegration):
     key = "agy"
     config = {
         "name": "Antigravity",
-        "folder": ".agents/",
+        "folder": ".agent/",
         "commands_subdir": "skills",
         "install_url": None,
         "requires_cli": False,
     }
     registrar_config = {
-        "dir": ".agents/skills",
+        "dir": ".agent/skills",
         "format": "markdown",
         "args": "$ARGUMENTS",
         "extension": "/SKILL.md",
     }
     context_file = "AGENTS.md"
 
-    def setup(
+    @classmethod
-        self,
+    def options(cls) -> list[IntegrationOption]:
-        project_root: Path,
+        return [
-        manifest: IntegrationManifest,
+            IntegrationOption(
-        parsed_options: dict[str, Any] | None = None,
+                "--skills",
-        **opts: Any,
+                is_flag=True,
-    ) -> list[Path]:
+                default=True,
-        import click
+                help="Install as agent skills (default for Antigravity since v1.20.5)",
-
+            ),
-        click.secho(
+        ]
-            "Warning: The .agents/ layout requires Antigravity v1.20.5 or newer. "
-            "Please ensure your agy installation is up to date.",
-            fg="yellow",
-            err=True,
-        )
-        return super().setup(project_root, manifest, parsed_options=parsed_options, **opts)

src/specify_cli/integrations/base.py

@@ -482,7 +482,7 @@ class IntegrationBase(ABC):
         )
 
         if ctx_path.exists():
-            content = ctx_path.read_text(encoding="utf-8-sig")
+            content = ctx_path.read_text(encoding="utf-8")
             start_idx = content.find(self.CONTEXT_MARKER_START)
             end_idx = content.find(
                 self.CONTEXT_MARKER_END,
@@ -547,7 +547,7 @@ class IntegrationBase(ABC):
         if not ctx_path.exists():
             return False
 
-        content = ctx_path.read_text(encoding="utf-8-sig")
+        content = ctx_path.read_text(encoding="utf-8")
         start_idx = content.find(self.CONTEXT_MARKER_START)
         end_idx = content.find(
             self.CONTEXT_MARKER_END,

src/specify_cli/integrations/copilot/__init__.py

@@ -10,9 +10,7 @@ Copilot has several unique behaviors compared to standard markdown agents:
 from __future__ import annotations
 
 import json
-import os
 import shutil
-import warnings
 from pathlib import Path
 from typing import Any
 
@@ -20,30 +18,6 @@ from ..base import IntegrationBase
 from ..manifest import IntegrationManifest
 
 
-def _allow_all() -> bool:
-    """Return True if the Copilot CLI should run with full permissions.
-
-    Checks ``SPECKIT_COPILOT_ALLOW_ALL_TOOLS`` first (new canonical name).
-    Falls back to the deprecated ``SPECKIT_ALLOW_ALL_TOOLS`` if set,
-    emitting a deprecation warning.  Default when neither is set: enabled.
-    """
-    new_var = os.environ.get("SPECKIT_COPILOT_ALLOW_ALL_TOOLS")
-    if new_var is not None:
-        return new_var != "0"
-
-    old_var = os.environ.get("SPECKIT_ALLOW_ALL_TOOLS")
-    if old_var is not None:
-        warnings.warn(
-            "SPECKIT_ALLOW_ALL_TOOLS is deprecated; "
-            "use SPECKIT_COPILOT_ALLOW_ALL_TOOLS instead.",
-            UserWarning,
-            stacklevel=2,
-        )
-        return old_var != "0"
-
-    return True
-
-
 class CopilotIntegration(IntegrationBase):
     """Integration for GitHub Copilot (VS Code IDE + CLI).
 
@@ -76,15 +50,13 @@ class CopilotIntegration(IntegrationBase):
         output_json: bool = True,
     ) -> list[str] | None:
         # GitHub Copilot CLI uses ``copilot -p "prompt"`` for
-        # non-interactive mode.  --yolo enables all permissions
+        # non-interactive mode.  --allow-all-tools is required for the
-        # (tools, paths, and URLs) so the agent can perform file
+        # agent to perform file edits and shell commands.  Controlled
-        # edits and shell commands without interactive prompts.
+        # by SPECKIT_ALLOW_ALL_TOOLS env var (default: enabled).
-        # Controlled by SPECKIT_COPILOT_ALLOW_ALL_TOOLS env var
+        import os
-        # (default: enabled).  The deprecated SPECKIT_ALLOW_ALL_TOOLS
-        # is also honoured as a fallback.
         args = ["copilot", "-p", prompt]
-        if _allow_all():
+        if os.environ.get("SPECKIT_ALLOW_ALL_TOOLS", "1") != "0":
-            args.append("--yolo")
+            args.append("--allow-all-tools")
         if model:
             args.extend(["--model", model])
         if output_json:
@@ -119,12 +91,13 @@ class CopilotIntegration(IntegrationBase):
         agent_name = f"speckit.{stem}"
 
         prompt = args or ""
+        import os
         cli_args = [
             "copilot", "-p", prompt,
             "--agent", agent_name,
         ]
-        if _allow_all():
+        if os.environ.get("SPECKIT_ALLOW_ALL_TOOLS", "1") != "0":
-            cli_args.append("--yolo")
+            cli_args.append("--allow-all-tools")
         if model:
             cli_args.extend(["--model", model])
         if not stream:

tests/integrations/test_integration_agy.py

@@ -5,17 +5,12 @@ from .test_integration_base_skills import SkillsIntegrationTests
 
 class TestAgyIntegration(SkillsIntegrationTests):
     KEY = "agy"
-    FOLDER = ".agents/"
+    FOLDER = ".agent/"
     COMMANDS_SUBDIR = "skills"
-    REGISTRAR_DIR = ".agents/skills"
+    REGISTRAR_DIR = ".agent/skills"
     CONTEXT_FILE = "AGENTS.md"
 
-    def test_options_include_skills_flag(self):
+
-        """Override inherited test: AgyIntegration should not expose a --skills flag because .agents/ is its only layout."""
-        from specify_cli.integrations import get_integration
-        i = get_integration(self.KEY)
-        skills_opts = [o for o in i.options() if o.name == "--skills"]
-        assert len(skills_opts) == 0
 class TestAgyAutoPromote:
     """--ai agy auto-promotes to integration path."""
 
@@ -29,17 +24,4 @@ class TestAgyAutoPromote:
         result = runner.invoke(app, ["init", str(target), "--ai", "agy", "--no-git", "--script", "sh"])
 
         assert result.exit_code == 0, f"init --ai agy failed: {result.output}"
-        assert (target / ".agents" / "skills" / "speckit-plan" / "SKILL.md").exists()
+        assert (target / ".agent" / "skills" / "speckit-plan" / "SKILL.md").exists()
-
-    def test_agy_setup_warning(self, tmp_path):
-        """Agy integration should print a warning about v1.20.5 requirement during setup."""
-        from typer.testing import CliRunner
-        from specify_cli import app
-
-        # Click >= 8.2 separates stdout and stderr natively, mix_stderr is removed
-        runner = CliRunner()
-        target = tmp_path / "test-proj2"
-        result = runner.invoke(app, ["init", str(target), "--ai", "agy", "--no-git", "--script", "sh"])
-
-        assert result.exit_code == 0
-        assert "Warning: The .agents/ layout requires Antigravity v1.20.5 or newer" in result.stderr

tests/integrations/test_integration_claude.py

@@ -1,6 +1,5 @@
 """Tests for ClaudeIntegration."""
 
-import codecs
 import json
 import os
 from unittest.mock import patch
@@ -75,46 +74,6 @@ class TestClaudeIntegration:
         assert "<!-- SPECKIT END -->" in content
         assert "read the current plan" in content
 
-    def test_upsert_context_section_strips_bom(self, tmp_path):
-        """Existing context file with UTF-8 BOM must be cleaned up on upsert."""
-        integration = get_integration("claude")
-        ctx_path = tmp_path / integration.context_file
-
-        # Write a file that starts with a UTF-8 BOM (as the old PowerShell script did)
-        bom = codecs.BOM_UTF8
-        ctx_path.write_bytes(bom + b"# CLAUDE.md\n\nSome existing content.\n")
-
-        integration.upsert_context_section(tmp_path)
-
-        result = ctx_path.read_bytes()
-        assert not result.startswith(bom), "BOM must be stripped after upsert"
-        content = result.decode("utf-8")
-        assert "<!-- SPECKIT START -->" in content
-        assert "Some existing content." in content
-
-    def test_remove_context_section_strips_bom(self, tmp_path):
-        """remove_context_section must clean BOM from context file on Windows-authored files."""
-        integration = get_integration("claude")
-        ctx_path = tmp_path / integration.context_file
-
-        marker_content = (
-            "# CLAUDE.md\n\n"
-            "<!-- SPECKIT START -->\n"
-            "For additional context about technologies to be used, project structure,\n"
-            "shell commands, and other important information, read the current plan\n"
-            "<!-- SPECKIT END -->\n"
-        )
-        ctx_path.write_bytes(codecs.BOM_UTF8 + marker_content.encode("utf-8"))
-
-        result = integration.remove_context_section(tmp_path)
-
-        assert result is True
-        assert ctx_path.exists(), "File should exist (non-empty content remains)"
-        remaining = ctx_path.read_bytes()
-        assert not remaining.startswith(codecs.BOM_UTF8), "BOM must be stripped after remove"
-        assert b"<!-- SPECKIT" not in remaining
-        assert b"# CLAUDE.md" in remaining
-
     def test_ai_flag_auto_promotes_and_enables_skills(self, tmp_path):
         from typer.testing import CliRunner
         from specify_cli import app

tests/test_presets.py

@@ -2447,7 +2447,7 @@ class TestPresetSkills:
     def test_agy_skill_restored_on_preset_remove(self, project_dir, temp_dir):
         """Agy preset removal should restore native skills instead of deleting them."""
         self._write_init_options(project_dir, ai="agy", ai_skills=True)
-        skills_dir = project_dir / ".agents" / "skills"
+        skills_dir = project_dir / ".agent" / "skills"
         self._create_skill(skills_dir, "speckit-specify", body="before override")
 
         core_command = project_dir / ".specify" / "templates" / "commands" / "specify.md"

tests/test_workflows.py

@@ -367,49 +367,15 @@ class TestBuildExecArgs:
         assert args[2] == "do stuff"
         assert "--json" in args
 
-    def test_copilot_exec_args(self, monkeypatch):
+    def test_copilot_exec_args(self):
-        monkeypatch.delenv("SPECKIT_COPILOT_ALLOW_ALL_TOOLS", raising=False)
-        monkeypatch.delenv("SPECKIT_ALLOW_ALL_TOOLS", raising=False)
         from specify_cli.integrations.copilot import CopilotIntegration
         impl = CopilotIntegration()
         args = impl.build_exec_args("do stuff", model="claude-sonnet-4-20250514")
         assert args[0] == "copilot"
         assert "-p" in args
-        assert "--yolo" in args
+        assert "--allow-all-tools" in args
         assert "--model" in args
 
-    def test_copilot_new_env_var_disables_yolo(self, monkeypatch):
-        monkeypatch.setenv("SPECKIT_COPILOT_ALLOW_ALL_TOOLS", "0")
-        monkeypatch.delenv("SPECKIT_ALLOW_ALL_TOOLS", raising=False)
-        from specify_cli.integrations.copilot import CopilotIntegration
-        impl = CopilotIntegration()
-        args = impl.build_exec_args("do stuff")
-        assert "--yolo" not in args
-
-    def test_copilot_deprecated_env_var_still_honoured(self, monkeypatch):
-        monkeypatch.delenv("SPECKIT_COPILOT_ALLOW_ALL_TOOLS", raising=False)
-        monkeypatch.setenv("SPECKIT_ALLOW_ALL_TOOLS", "0")
-        import warnings
-        from specify_cli.integrations.copilot import CopilotIntegration
-        impl = CopilotIntegration()
-        with warnings.catch_warnings(record=True) as w:
-            warnings.simplefilter("always")
-            args = impl.build_exec_args("do stuff")
-        assert "--yolo" not in args
-        assert any(
-            "SPECKIT_ALLOW_ALL_TOOLS is deprecated" in str(x.message)
-            and issubclass(x.category, UserWarning)
-            for x in w
-        )
-
-    def test_copilot_new_env_var_takes_precedence(self, monkeypatch):
-        monkeypatch.setenv("SPECKIT_COPILOT_ALLOW_ALL_TOOLS", "1")
-        monkeypatch.setenv("SPECKIT_ALLOW_ALL_TOOLS", "0")
-        from specify_cli.integrations.copilot import CopilotIntegration
-        impl = CopilotIntegration()
-        args = impl.build_exec_args("do stuff")
-        assert "--yolo" in args
-
     def test_ide_only_returns_none(self):
         from specify_cli.integrations.windsurf import WindsurfIntegration
         impl = WindsurfIntegration()
@@ -434,7 +400,6 @@ class TestCommandStep:
     """Test the command step type."""
 
     def test_execute_basic(self):
-        from unittest.mock import patch
         from specify_cli.workflows.steps.command import CommandStep
         from specify_cli.workflows.base import StepContext, StepStatus
 
@@ -448,8 +413,7 @@ class TestCommandStep:
             "command": "speckit.specify",
             "input": {"args": "{{ inputs.name }}"},
         }
-        with patch("specify_cli.workflows.steps.command.shutil.which", return_value=None):
+        result = step.execute(config, ctx)
-            result = step.execute(config, ctx)
         assert result.status == StepStatus.FAILED
         assert result.output["command"] == "speckit.specify"
         assert result.output["integration"] == "claude"
@@ -510,7 +474,6 @@ class TestCommandStep:
 
     def test_dispatch_not_attempted_without_cli(self):
         """When the CLI tool is not installed, step should fail."""
-        from unittest.mock import patch
         from specify_cli.workflows.steps.command import CommandStep
         from specify_cli.workflows.base import StepContext, StepStatus
 
@@ -525,8 +488,7 @@ class TestCommandStep:
             "command": "speckit.specify",
             "input": {"args": "{{ inputs.name }}"},
         }
-        with patch("specify_cli.workflows.steps.command.shutil.which", return_value=None):
+        result = step.execute(config, ctx)
-            result = step.execute(config, ctx)
         assert result.status == StepStatus.FAILED
         assert result.output["dispatched"] is False
         assert result.error is not None
@@ -604,7 +566,6 @@ class TestPromptStep:
     """Test the prompt step type."""
 
     def test_execute_basic(self):
-        from unittest.mock import patch
         from specify_cli.workflows.steps.prompt import PromptStep
         from specify_cli.workflows.base import StepContext, StepStatus
 
@@ -618,8 +579,7 @@ class TestPromptStep:
             "type": "prompt",
             "prompt": "Review {{ inputs.file }} for security issues",
         }
-        with patch("specify_cli.workflows.steps.prompt.shutil.which", return_value=None):
+        result = step.execute(config, ctx)
-            result = step.execute(config, ctx)
         assert result.status == StepStatus.FAILED
         assert result.output["prompt"] == "Review auth.py for security issues"
         assert result.output["integration"] == "claude"
@@ -1351,7 +1311,6 @@ class TestWorkflowEngine:
             engine.load_workflow("nonexistent")
 
     def test_execute_simple_workflow(self, project_dir):
-        from unittest.mock import patch
         from specify_cli.workflows.engine import WorkflowEngine, WorkflowDefinition
         from specify_cli.workflows.base import RunStatus
 
@@ -1374,8 +1333,7 @@ steps:
 """
         definition = WorkflowDefinition.from_string(yaml_str)
         engine = WorkflowEngine(project_dir)
-        with patch("specify_cli.workflows.steps.command.shutil.which", return_value=None):
+        state = engine.execute(definition, {"name": "login"})
-            state = engine.execute(definition, {"name": "login"})
 
         assert state.status == RunStatus.FAILED
         assert "step-one" in state.step_results