### Godot version

4.1 24cb43a

### System information

Windows 10 x64

### Issue description

Every time I launch Godot, I'm greeted with this in my console:
```
ERROR: Resource file not found: res://InputEventKey_7cuxk.
   at: (core\io\resource_loader.cpp:227)
```
Seems to be only happening in Project Manager and comes from this:
![](https://chat.godotengine.org/file-upload/udqZP8NQfogp4rjRL/Clipboard%20-%2021%20kwietnia%202023%2022:24)
It's part of my `editor_settings-4.tres`. I didn't test, but I think it applies to any shortcut that you customize. For some reason ResourceLoader tries to load it as a project resource, while it's a sub-resource.

Does not happen in 4.0.2.

### Steps to reproduce

1. Open Godot 4.1 project manager
2. Check the console

### Minimal reproduction project

N/A
initialize_modules(MODULE_INITIALIZATION_LEVEL_CORE);
	register_core_extensions();
	register_core_singletons();
	
	register_server_types();
	XRServer::set_xr_mode(XRServer::XRMODE_OFF); 
	initialize_modules(MODULE_INITIALIZATION_LEVEL_SERVERS);
	GDExtensionManager::get_singleton()->initialize_extensions(GDExtension::INITIALIZATION_LEVEL_SERVERS);
	translation_server->setup(); 
	if (!locale.is_empty()) {
		translation_server->set_locale(locale);
	}
	translation_server->load_translations();
	ResourceLoader::load_translation_remaps(); 
	ResourceLoader::load_path_remaps();
	register_scene_types();
	register_driver_types();
	initialize_modules(MODULE_INITIALIZATION_LEVEL_SCENE);
	GDExtensionManager::get_singleton()->initialize_extensions(GDExtension::INITIALIZATION_LEVEL_SCENE);
#ifdef TOOLS_ENABLED
	ClassDB::set_current_api(ClassDB::API_EDITOR);
	register_editor_types();
	initialize_modules(MODULE_INITIALIZATION_LEVEL_EDITOR);
	GDExtensionManager::get_singleton()->initialize_extensions(GDExtension::INITIALIZATION_LEVEL_EDITOR);
	ClassDB::set_current_api(ClassDB::API_CORE);
#endif
	register_platform_apis();
	
	initialize_theme_db();
	theme_db->initialize_theme();