### 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
OS::get_singleton()->benchmark_begin_measure("Main::cleanup");
	if (!p_force) {
		ERR_FAIL_COND(!_start_success);
	}
	for (int i = 0; i < TextServerManager::get_singleton()->get_interface_count(); i++) {
		TextServerManager::get_singleton()->get_interface(i)->cleanup();
	}
	if (movie_writer) {
		movie_writer->end();
	}
	ResourceLoader::clear_thread_load_tasks();
	ResourceLoader::remove_custom_loaders();
	ResourceSaver::remove_custom_savers();
	/
	message_queue->flush();
	OS::get_singleton()->delete_main_loop();
	OS::get_singleton()->_cmdline.clear();
	OS::get_singleton()->_user_args.clear();
	OS::get_singleton()->_execpath = "";
	OS::get_singleton()->_local_clipboard = "";
	ResourceLoader::clear_translation_remaps();
	ResourceLoader::clear_path_remaps();
	ScriptServer::finish_languages();
	/