fix: critical permission modal and config issues (#127)

## Summary

This PR resolves several critical bugs that were blocking the permission modal and causing config loss:

- **Permission modal not appearing** - Fixed z-index issues and runtime errors
- **Config store race condition** - Resolved critical race condition causing settings to be lost
- **Excessive logging** - Removed redundant fmt layer that was writing to hidden stdout
- **System tool prompts** - Prevented unnecessary permission prompts for built-in tools
- **Permission batching** - Added support for parallel permission requests
- **ExitPlanMode tool** - Fixed ExitPlanMode tool not functioning correctly

## Changes Made

### Permission Modal Fixes
- Updated z-index to proper value (9999) to ensure modal appears above all other UI elements
- Fixed runtime errors that were preventing modal from rendering
- Resolved issues with permission grants not being properly applied

### Config Store Race Condition
- Fixed critical race condition where multiple rapid config updates would result in lost settings
- Ensured config writes are properly sequenced to prevent data loss
- Added proper synchronisation for config store operations

### Logging Cleanup
- Removed redundant fmt formatting layer that was outputting to hidden stdout
- Cleaned up excessive debug logging added during troubleshooting
- Removed temporary debugging documentation files

### UX Improvements
- Added close confirmation modal with minimise to tray option
- Implemented batching for parallel permission requests
- Added debug console for viewing frontend and backend logs

### ExitPlanMode Fix
- Fixed ExitPlanMode tool not functioning correctly, ensuring proper transitions out of plan mode

## Issues Resolved

Closes #112 - Permission flow now properly handles multiple tool requests
Closes #113 - ExitPlanMode tool now functions correctly
Closes #126 - Debug console feature added (partial - basic implementation complete)

## Test Plan

- [x] Permission modal appears and functions correctly
- [x] Config settings persist across app restarts
- [x] No excessive logging in production builds
- [x] System tools don't trigger permission prompts
- [x] Parallel permission requests are properly batched
- [x] Debug console displays frontend and backend logs
- [x] ExitPlanMode properly exits plan mode

---
✨ This PR was created with help from Hikari~ 🌸

Co-authored-by: Naomi Carrigan <commits@nhcarrigan.com>
Reviewed-on: #127
Co-authored-by: Hikari <hikari@nhcarrigan.com>
Co-committed-by: Hikari <hikari@nhcarrigan.com>

src-tauri/src/config.rs

@@ -28,6 +28,7 @@ pub struct ClaudeStartOptions {
 }
 
 #[derive(Debug, Clone, Serialize, Deserialize)]
+#[serde(default)]
 pub struct HikariConfig {
     #[serde(default)]
     pub model: Option<String>,
@@ -71,9 +72,6 @@ pub struct HikariConfig {
     #[serde(default = "default_font_size")]
     pub font_size: u32,
 
-    #[serde(default)]
-    pub minimize_to_tray: bool,
-
     #[serde(default)]
     pub streamer_mode: bool,
 
@@ -134,7 +132,6 @@ impl Default for HikariConfig {
             update_checks_enabled: true,
             character_panel_width: None,
             font_size: 14,
-            minimize_to_tray: false,
             streamer_mode: false,
             streamer_hide_paths: false,
             compact_mode: false,
@@ -242,7 +239,6 @@ mod tests {
         assert!(config.update_checks_enabled);
         assert!(config.character_panel_width.is_none());
         assert_eq!(config.font_size, 14);
-        assert!(!config.minimize_to_tray);
         assert!(!config.streamer_mode);
         assert!(!config.streamer_hide_paths);
         assert!(!config.compact_mode);
@@ -275,7 +271,6 @@ mod tests {
             update_checks_enabled: true,
             character_panel_width: Some(400),
             font_size: 16,
-            minimize_to_tray: true,
             streamer_mode: false,
             streamer_hide_paths: false,
             compact_mode: false,