feat(nixos): build pi from monorepo fork

configs/nixos/modules/shell/pi/default.nix

@@ -11,12 +11,10 @@ let
   cfg = config.modules.shell.pi;
   user = config.user.name;
   piDir = "${config.users.users.${user}.home}/.pi/agent";
-  patchedPi = pkgs.pi-coding-agent.overrideAttrs (old: {
+  forkedPi = pkgs.pi-coding-agent.overrideAttrs {
-    patches = (old.patches or [ ]) ++ [
+    src = ../../../../../src/pi;
-      ./patches/pi-project-resource-ancestors.patch
+    patches = [ ];
-      ./patches/pi-tool-lookup-validation.patch
+  };
-    ];
-  });
 in
 {
   options.modules.shell.pi = {
@@ -28,7 +26,7 @@ in
     home-manager.users.${user} = {
       programs.pi-coding-agent = {
         enable = true;
-        package = patchedPi;
+        package = forkedPi;
 
         settings = {
           defaultProvider = "openai-codex";

configs/nixos/modules/shell/pi/patches/pi-project-resource-ancestors.patch

@@ -1,140 +0,0 @@
-diff --git a/packages/coding-agent/src/core/package-manager.ts b/packages/coding-agent/src/core/package-manager.ts
---- a/packages/coding-agent/src/core/package-manager.ts
-+++ b/packages/coding-agent/src/core/package-manager.ts
-@@ -459,14 +459,14 @@ function findGitRepoRoot(startDir: string): string | null {
- 	}
- }
- 
--function collectAncestorAgentsSkillDirs(startDir: string): string[] {
--	const skillDirs: string[] = [];
-+function collectAncestorConfigDirs(startDir: string, configDirName: string): string[] {
-+	const configDirs: string[] = [];
- 	const resolvedStartDir = resolve(startDir);
- 	const gitRepoRoot = findGitRepoRoot(resolvedStartDir);
- 
- 	let dir = resolvedStartDir;
- 	while (true) {
--		skillDirs.push(join(dir, ".agents", "skills"));
-+		configDirs.push(join(dir, configDirName));
- 		if (gitRepoRoot && dir === gitRepoRoot) {
- 			break;
- 		}
-@@ -477,7 +477,7 @@ function collectAncestorAgentsSkillDirs(startDir: string): string[] {
- 		dir = parent;
- 	}
- 
--	return skillDirs;
-+	return configDirs;
- }
- 
- function collectAutoPromptEntries(dir: string): string[] {
-@@ -2388,16 +2388,13 @@ export class DefaultPackageManager implements PackageManager {
- 			prompts: join(globalBaseDir, "prompts"),
- 			themes: join(globalBaseDir, "themes"),
- 		};
--		const projectDirs = {
--			extensions: join(projectBaseDir, "extensions"),
--			skills: join(projectBaseDir, "skills"),
--			prompts: join(projectBaseDir, "prompts"),
--			themes: join(projectBaseDir, "themes"),
--		};
- 		const userAgentsSkillsDir = join(getHomeDir(), ".agents", "skills");
- 		const projectTrusted = this.settingsManager.isProjectTrusted();
--		const projectAgentsSkillDirs = projectTrusted
--			? collectAncestorAgentsSkillDirs(this.cwd).filter((dir) => resolve(dir) !== resolve(userAgentsSkillsDir))
-+		const projectConfigDirs = projectTrusted
-+			? collectAncestorConfigDirs(this.cwd, CONFIG_DIR_NAME).filter((dir) => resolve(dir) !== resolve(globalBaseDir))
-+			: [];
-+		const projectAgentsDirs = projectTrusted
-+			? collectAncestorConfigDirs(this.cwd, ".agents").filter((dir) => resolve(dir) !== resolve(dirname(userAgentsSkillsDir)))
- 			: [];
- 
- 		const addResources = (
-@@ -2414,56 +2411,54 @@ export class DefaultPackageManager implements PackageManager {
- 			}
- 		};
- 
--		if (projectTrusted) {
--			// Project extensions from .pi/
-+		// Project resources from .pi/ in cwd and ancestors.
-+		for (const configDir of projectConfigDirs) {
-+			const configMetadata: PathMetadata = {
-+				...projectMetadata,
-+				baseDir: configDir,
-+			};
- 			addResources(
- 				"extensions",
--				collectAutoExtensionEntries(projectDirs.extensions),
--				projectMetadata,
-+				collectAutoExtensionEntries(join(configDir, "extensions")),
-+				configMetadata,
- 				projectOverrides.extensions,
--				projectBaseDir,
-+				configDir,
- 			);
--
--			// Project skills from .pi/
- 			addResources(
- 				"skills",
--				collectAutoSkillEntries(projectDirs.skills, "pi"),
--				projectMetadata,
-+				collectAutoSkillEntries(join(configDir, "skills"), "pi"),
-+				configMetadata,
- 				projectOverrides.skills,
--				projectBaseDir,
-+				configDir,
-+			);
-+			addResources(
-+				"prompts",
-+				collectAutoPromptEntries(join(configDir, "prompts")),
-+				configMetadata,
-+				projectOverrides.prompts,
-+				configDir,
-+			);
-+			addResources(
-+				"themes",
-+				collectAutoThemeEntries(join(configDir, "themes")),
-+				configMetadata,
-+				projectOverrides.themes,
-+				configDir,
- 			);
- 		}
- 
--		// Project skills from .agents/ (each with its own baseDir)
--		for (const agentsSkillsDir of projectAgentsSkillDirs) {
--			const agentsBaseDir = dirname(agentsSkillsDir); // the .agents directory
-+		// Project skills from .agents/ in cwd and ancestors.
-+		for (const agentsDir of projectAgentsDirs) {
- 			const agentsMetadata: PathMetadata = {
- 				...projectMetadata,
--				baseDir: agentsBaseDir,
-+				baseDir: agentsDir,
- 			};
- 			addResources(
- 				"skills",
--				collectAutoSkillEntries(agentsSkillsDir, "agents"),
-+				collectAutoSkillEntries(join(agentsDir, "skills"), "agents"),
- 				agentsMetadata,
- 				projectOverrides.skills,
--				agentsBaseDir,
--			);
--		}
--
--		if (projectTrusted) {
--			addResources(
--				"prompts",
--				collectAutoPromptEntries(projectDirs.prompts),
--				projectMetadata,
--				projectOverrides.prompts,
--				projectBaseDir,
--			);
--			addResources(
--				"themes",
--				collectAutoThemeEntries(projectDirs.themes),
--				projectMetadata,
--				projectOverrides.themes,
--				projectBaseDir,
-+				agentsDir,
- 			);
- 		}
- 

configs/nixos/modules/shell/pi/patches/pi-tool-lookup-validation.patch

@@ -1,23 +0,0 @@
-diff --git a/packages/coding-agent/src/utils/tools-manager.ts b/packages/coding-agent/src/utils/tools-manager.ts
---- a/packages/coding-agent/src/utils/tools-manager.ts	2026-08-01 18:41:36.970496010 -0400
-+++ b/packages/coding-agent/src/utils/tools-manager.ts	2026-08-01 18:41:37.028186009 -0400
-@@ -74,8 +74,8 @@
- function commandExists(cmd: string): boolean {
- 	try {
- 		const result = spawnSync(cmd, ["--version"], { stdio: "pipe" });
--		// Check for ENOENT error (command not found)
--		return result.error === undefined || result.error === null;
-+		// Downloaded generic Linux binaries can exist but fail on NixOS before they print a version.
-+		return (result.error === undefined || result.error === null) && result.status === 0;
- 	} catch {
- 		return false;
- 	}
-@@ -88,7 +87,7 @@
- 
- 	// Check our tools directory first
- 	const localPath = join(TOOLS_DIR, config.binaryName + (platform() === "win32" ? ".exe" : ""));
--	if (existsSync(localPath)) {
-+	if (existsSync(localPath) && commandExists(localPath)) {
- 		return localPath;
- 	}
- 

src/pi/packages/coding-agent/src/core/package-manager.ts

@@ -459,14 +459,14 @@ function findGitRepoRoot(startDir: string): string | null {
 	}
 }
 
-function collectAncestorAgentsSkillDirs(startDir: string): string[] {
+function collectAncestorConfigDirs(startDir: string, configDirName: string): string[] {
-	const skillDirs: string[] = [];
+	const configDirs: string[] = [];
 	const resolvedStartDir = resolve(startDir);
 	const gitRepoRoot = findGitRepoRoot(resolvedStartDir);
 
 	let dir = resolvedStartDir;
 	while (true) {
-		skillDirs.push(join(dir, ".agents", "skills"));
+		configDirs.push(join(dir, configDirName));
 		if (gitRepoRoot && dir === gitRepoRoot) {
 			break;
 		}
@@ -477,7 +477,7 @@ function collectAncestorAgentsSkillDirs(startDir: string): string[] {
 		dir = parent;
 	}
 
-	return skillDirs;
+	return configDirs;
 }
 
 function collectAutoPromptEntries(dir: string): string[] {
@@ -2388,16 +2388,13 @@ export class DefaultPackageManager implements PackageManager {
 			prompts: join(globalBaseDir, "prompts"),
 			themes: join(globalBaseDir, "themes"),
 		};
-		const projectDirs = {
-			extensions: join(projectBaseDir, "extensions"),
-			skills: join(projectBaseDir, "skills"),
-			prompts: join(projectBaseDir, "prompts"),
-			themes: join(projectBaseDir, "themes"),
-		};
 		const userAgentsSkillsDir = join(getHomeDir(), ".agents", "skills");
 		const projectTrusted = this.settingsManager.isProjectTrusted();
-		const projectAgentsSkillDirs = projectTrusted
+		const projectConfigDirs = projectTrusted
-			? collectAncestorAgentsSkillDirs(this.cwd).filter((dir) => resolve(dir) !== resolve(userAgentsSkillsDir))
+			? collectAncestorConfigDirs(this.cwd, CONFIG_DIR_NAME).filter((dir) => resolve(dir) !== resolve(globalBaseDir))
+			: [];
+		const projectAgentsDirs = projectTrusted
+			? collectAncestorConfigDirs(this.cwd, ".agents").filter((dir) => resolve(dir) !== resolve(dirname(userAgentsSkillsDir)))
 			: [];
 
 		const addResources = (
@@ -2414,56 +2411,54 @@ export class DefaultPackageManager implements PackageManager {
 			}
 		};
 
-		if (projectTrusted) {
+		// Project resources from .pi/ in cwd and ancestors.
-			// Project extensions from .pi/
+		for (const configDir of projectConfigDirs) {
-			addResources(
+			const configMetadata: PathMetadata = {
-				"extensions",
-				collectAutoExtensionEntries(projectDirs.extensions),
-				projectMetadata,
-				projectOverrides.extensions,
-				projectBaseDir,
-			);
-
-			// Project skills from .pi/
-			addResources(
-				"skills",
-				collectAutoSkillEntries(projectDirs.skills, "pi"),
-				projectMetadata,
-				projectOverrides.skills,
-				projectBaseDir,
-			);
-		}
-
-		// Project skills from .agents/ (each with its own baseDir)
-		for (const agentsSkillsDir of projectAgentsSkillDirs) {
-			const agentsBaseDir = dirname(agentsSkillsDir); // the .agents directory
-			const agentsMetadata: PathMetadata = {
 				...projectMetadata,
-				baseDir: agentsBaseDir,
+				baseDir: configDir,
 			};
 			addResources(
-				"skills",
+				"extensions",
-				collectAutoSkillEntries(agentsSkillsDir, "agents"),
+				collectAutoExtensionEntries(join(configDir, "extensions")),
-				agentsMetadata,
+				configMetadata,
-				projectOverrides.skills,
+				projectOverrides.extensions,
-				agentsBaseDir,
+				configDir,
+			);
+			addResources(
+				"skills",
+				collectAutoSkillEntries(join(configDir, "skills"), "pi"),
+				configMetadata,
+				projectOverrides.skills,
+				configDir,
 			);
-		}
-
-		if (projectTrusted) {
 			addResources(
 				"prompts",
-				collectAutoPromptEntries(projectDirs.prompts),
+				collectAutoPromptEntries(join(configDir, "prompts")),
-				projectMetadata,
+				configMetadata,
 				projectOverrides.prompts,
-				projectBaseDir,
+				configDir,
 			);
 			addResources(
 				"themes",
-				collectAutoThemeEntries(projectDirs.themes),
+				collectAutoThemeEntries(join(configDir, "themes")),
-				projectMetadata,
+				configMetadata,
 				projectOverrides.themes,
-				projectBaseDir,
+				configDir,
+			);
+		}
+
+		// Project skills from .agents/ in cwd and ancestors.
+		for (const agentsDir of projectAgentsDirs) {
+			const agentsMetadata: PathMetadata = {
+				...projectMetadata,
+				baseDir: agentsDir,
+			};
+			addResources(
+				"skills",
+				collectAutoSkillEntries(join(agentsDir, "skills"), "agents"),
+				agentsMetadata,
+				projectOverrides.skills,
+				agentsDir,
 			);
 		}
 

src/pi/packages/coding-agent/src/utils/tools-manager.ts

@@ -72,8 +72,8 @@ const TOOLS: Record<string, ToolConfig> = {
 function commandExists(cmd: string): boolean {
 	try {
 		const result = spawnSync(cmd, ["--version"], { stdio: "pipe" });
-		// Check for ENOENT error (command not found)
+		// Downloaded generic Linux binaries can exist but fail on NixOS before they print a version.
-		return result.error === undefined || result.error === null;
+		return (result.error === undefined || result.error === null) && result.status === 0;
 	} catch {
 		return false;
 	}
@@ -86,7 +86,7 @@ export function getToolPath(tool: "fd" | "rg"): string | null {
 
 	// Check our tools directory first
 	const localPath = join(TOOLS_DIR, config.binaryName + (platform() === "win32" ? ".exe" : ""));
-	if (existsSync(localPath)) {
+	if (existsSync(localPath) && commandExists(localPath)) {
 		return localPath;
 	}