change: send down proj context with pi tool/skills

index.ts

@@ -1287,12 +1287,17 @@ async function handleReset(
 	ctx: ExtensionContext,
 	args: string[],
 ): Promise<void> {
+	let sourcePath: string;
+	let prdKey: string | undefined;
+	let progress: ProgressTracker;
+
 	if (args[0]) {
 		const taskFile = resolveTaskArg(args[0], ctx.cwd);
 		const found = findProgressFile(ctx.cwd, taskFile);
 		const projectDir = found ? path.dirname(path.dirname(found.path)) : ctx.cwd;
-		const progress = new ProgressTracker(projectDir, taskFile, found?.prdKey);
-		progress.reset();
+		sourcePath = taskFile;
+		prdKey = found?.prdKey;
+		progress = new ProgressTracker(projectDir, taskFile, prdKey);
 	} else {
 		const found = findProgressFile(ctx.cwd);
 		if (!found) {
@@ -1315,13 +1320,41 @@ async function handleReset(
 			ctx.ui.notify("Reset cancelled.", "info");
 			return;
 		}
-		const progress = new ProgressTracker(
-			projectDir,
-			selected.sourcePath,
-			selected.prdKey,
-		);
-		progress.reset();
+		sourcePath = selected.sourcePath;
+		prdKey = selected.prdKey;
+		progress = new ProgressTracker(projectDir, sourcePath, prdKey);
 	}
 
+	// Ask whether to also clear the progress markers (checkboxes/status) in the
+	// source PRD/README file itself, not just .ralpi/progress.json.
+	const taskIds = Object.keys(progress.getState().tasks);
+	if (taskIds.length > 0) {
+		const choice = await ctx.ui.select(
+			`Also reset progress markers in the source file (${path.basename(
+				sourcePath,
+			)})?`,
+			[
+				"Yes — clear checkboxes/status markers in the source PRD/README",
+				"No — only reset .ralpi/progress.json",
+			],
+		);
+		if (choice === undefined) {
+			ctx.ui.notify("Reset cancelled.", "info");
+			return;
+		}
+		if (choice.startsWith("Yes")) {
+			progress.reset();
+			for (const id of taskIds) {
+				updateTaskInFile(sourcePath, id, "pending");
+			}
+			ctx.ui.notify(
+				`Progress reset — cleared ${taskIds.length} task marker(s) in ${path.basename(sourcePath)}.`,
+				"info",
+			);
+			return;
+		}
+	}
+
+	progress.reset();
 	ctx.ui.notify("Progress reset. All task statuses cleared.", "info");
 }

package.json

@@ -1,6 +1,6 @@
 {
   "name": "@mikefreno/ralpi",
-  "version": "0.4.4",
+  "version": "0.5.0",
   "description": "Execute tasks from task files/PRD's using DAG-based dependency resolution with persistent progress tracking",
   "keywords": [
     "pi-package",

src/executor.ts

@@ -1434,7 +1434,7 @@ async function runFollowUpSession(
 				undefined,
 				model,
 				config.thinkingLevel,
-				true, // noSkills — follow-up sessions don't need the skills catalog
+				false, // noSkills=false — follow-up sessions load skills too
 				(ctx.modelRegistry as any).runtime as ModelRuntime,
 			);
 

src/utils.ts

@@ -596,14 +596,17 @@ export async function runAgentSession(
   } = {};
 
   try {
+    // Loop sessions load the full normal pi context: extensions (so all
+    // extension-provided tools register), skills, and project context
+    // (AGENTS.md / CLAUDE.md)
     const loader = new DefaultResourceLoader({
       cwd,
       agentDir: getAgentDir(),
-			noExtensions: true,
       noSkills,
       noPromptTemplates: true,
       noThemes: true,
-			noContextFiles: true,
+      noExtensions: false,
+      noContextFiles: false,
     });
     await loader.reload();
 
@@ -613,7 +616,7 @@ export async function runAgentSession(
       resourceLoader: loader,
       settingsManager: SettingsManager.create(cwd, getAgentDir()),
       modelRuntime,
-			tools: ["read", "bash", "edit", "write", "grep", "find", "ls"],
+      // No `tools` allowlist: matches a normal pi session's tool set.
       model: model as any,
       thinkingLevel: thinkingLevel as any,
     });