Fix concurrency limits and remote branch fetching issues (#788)

* Changes from fix/bug-fixes

* feat: Refactor worktree iteration and improve error logging across services

* feat: Extract URL/port patterns to module level and fix abort condition

* fix: Improve IPv6 loopback handling, select component layout, and terminal UI

* feat: Add thinking level defaults and adjust list row padding

* Update apps/ui/src/store/app-store.ts

Co-authored-by: coderabbitai[bot] <136622811+coderabbitai[bot]@users.noreply.github.com>

* feat: Add worktree-aware terminal creation and split options, fix npm security issues from audit

* feat: Add tracked remote detection to pull dialog flow

* feat: Add merge state tracking to git operations

* feat: Improve merge detection and add post-merge action preferences

* Update apps/ui/src/components/views/board-view/dialogs/git-pull-dialog.tsx

Co-authored-by: coderabbitai[bot] <136622811+coderabbitai[bot]@users.noreply.github.com>

* Update apps/ui/src/components/views/board-view/dialogs/git-pull-dialog.tsx

Co-authored-by: coderabbitai[bot] <136622811+coderabbitai[bot]@users.noreply.github.com>

* fix: Pass merge detection info to stash reapplication and handle merge state consistently

* fix: Call onPulled callback in merge handlers and add validation checks

---------

Co-authored-by: coderabbitai[bot] <136622811+coderabbitai[bot]@users.noreply.github.com>

apps/ui/src/components/views/settings-view/model-defaults/model-defaults-section.tsx

@@ -1,12 +1,16 @@
 import { useState } from 'react';
-import { Workflow, RotateCcw, Replace, Sparkles } from 'lucide-react';
+import { Workflow, RotateCcw, Replace, Sparkles, Brain } from 'lucide-react';
 import { cn } from '@/lib/utils';
 import { useAppStore } from '@/store/app-store';
 import { Button } from '@/components/ui/button';
 import { PhaseModelSelector } from './phase-model-selector';
 import { BulkReplaceDialog } from './bulk-replace-dialog';
-import type { PhaseModelKey, PhaseModelEntry } from '@automaker/types';
-import { DEFAULT_PHASE_MODELS, DEFAULT_GLOBAL_SETTINGS } from '@automaker/types';
+import type { PhaseModelKey, PhaseModelEntry, ThinkingLevel } from '@automaker/types';
+import {
+  DEFAULT_PHASE_MODELS,
+  DEFAULT_GLOBAL_SETTINGS,
+  REASONING_EFFORT_LEVELS,
+} from '@automaker/types';
 
 interface PhaseConfig {
   key: PhaseModelKey;
@@ -161,6 +165,121 @@ function FeatureDefaultModelSection() {
   );
 }
 
+// Thinking level options with descriptions for the settings UI
+const THINKING_LEVEL_OPTIONS: { id: ThinkingLevel; label: string; description: string }[] = [
+  { id: 'none', label: 'None', description: 'No extended thinking' },
+  { id: 'low', label: 'Low', description: 'Light reasoning (1k tokens)' },
+  { id: 'medium', label: 'Medium', description: 'Moderate reasoning (10k tokens)' },
+  { id: 'high', label: 'High', description: 'Deep reasoning (16k tokens)' },
+  { id: 'ultrathink', label: 'Ultra', description: 'Maximum reasoning (32k tokens)' },
+  { id: 'adaptive', label: 'Adaptive', description: 'Model decides reasoning depth' },
+];
+
+/**
+ * Default thinking level / reasoning effort section.
+ * These defaults are applied when selecting a model via the primary button
+ * in the two-stage model selector (i.e. clicking the model name directly).
+ */
+function DefaultThinkingLevelSection() {
+  const {
+    defaultThinkingLevel,
+    setDefaultThinkingLevel,
+    defaultReasoningEffort,
+    setDefaultReasoningEffort,
+  } = useAppStore();
+
+  return (
+    <div className="space-y-4">
+      <div>
+        <h3 className="text-sm font-medium text-foreground">Quick-Select Defaults</h3>
+        <p className="text-xs text-muted-foreground">
+          Thinking/reasoning level applied when quick-selecting a model from the dropdown. You can
+          always fine-tune per model via the expand arrow.
+        </p>
+      </div>
+      <div className="space-y-3">
+        {/* Default Thinking Level (Claude models) */}
+        <div
+          className={cn(
+            'flex items-center justify-between p-4 rounded-xl',
+            'bg-accent/20 border border-border/30',
+            'hover:bg-accent/30 transition-colors'
+          )}
+        >
+          <div className="flex items-center gap-3 flex-1 pr-4">
+            <div className="w-8 h-8 rounded-lg bg-purple-500/10 flex items-center justify-center">
+              <Brain className="w-4 h-4 text-purple-500" />
+            </div>
+            <div>
+              <h4 className="text-sm font-medium text-foreground">Default Thinking Level</h4>
+              <p className="text-xs text-muted-foreground">
+                Applied to Claude models when quick-selected
+              </p>
+            </div>
+          </div>
+          <div className="flex items-center gap-1.5 flex-wrap justify-end">
+            {THINKING_LEVEL_OPTIONS.map((option) => (
+              <button
+                key={option.id}
+                onClick={() => setDefaultThinkingLevel(option.id)}
+                className={cn(
+                  'px-2.5 py-1.5 rounded-lg text-xs font-medium transition-all',
+                  'border',
+                  defaultThinkingLevel === option.id
+                    ? 'bg-primary text-primary-foreground border-primary shadow-sm'
+                    : 'bg-background border-border/50 text-muted-foreground hover:bg-accent hover:text-foreground'
+                )}
+                title={option.description}
+              >
+                {option.label}
+              </button>
+            ))}
+          </div>
+        </div>
+
+        {/* Default Reasoning Effort (Codex models) */}
+        <div
+          className={cn(
+            'flex items-center justify-between p-4 rounded-xl',
+            'bg-accent/20 border border-border/30',
+            'hover:bg-accent/30 transition-colors'
+          )}
+        >
+          <div className="flex items-center gap-3 flex-1 pr-4">
+            <div className="w-8 h-8 rounded-lg bg-blue-500/10 flex items-center justify-center">
+              <Brain className="w-4 h-4 text-blue-500" />
+            </div>
+            <div>
+              <h4 className="text-sm font-medium text-foreground">Default Reasoning Effort</h4>
+              <p className="text-xs text-muted-foreground">
+                Applied to Codex/OpenAI models when quick-selected
+              </p>
+            </div>
+          </div>
+          <div className="flex items-center gap-1.5 flex-wrap justify-end">
+            {REASONING_EFFORT_LEVELS.map((option) => (
+              <button
+                key={option.id}
+                onClick={() => setDefaultReasoningEffort(option.id)}
+                className={cn(
+                  'px-2.5 py-1.5 rounded-lg text-xs font-medium transition-all',
+                  'border',
+                  defaultReasoningEffort === option.id
+                    ? 'bg-primary text-primary-foreground border-primary shadow-sm'
+                    : 'bg-background border-border/50 text-muted-foreground hover:bg-accent hover:text-foreground'
+                )}
+                title={option.description}
+              >
+                {option.label}
+              </button>
+            ))}
+          </div>
+        </div>
+      </div>
+    </div>
+  );
+}
+
 export function ModelDefaultsSection() {
   const { resetPhaseModels, claudeCompatibleProviders } = useAppStore();
   const [showBulkReplace, setShowBulkReplace] = useState(false);
@@ -222,6 +341,9 @@ export function ModelDefaultsSection() {
         {/* Feature Defaults */}
         <FeatureDefaultModelSection />
 
+        {/* Default Thinking Level / Reasoning Effort */}
+        <DefaultThinkingLevelSection />
+
         {/* Quick Tasks */}
         <PhaseGroup
           title="Quick Tasks"