### Godot version

v4.0.beta.custom_build [0a9e6e478]

### System information

Windows 10, Vulkan, GTX 960 528.24

### Issue description

This [55420](https://github.com/godotengine/godot/issues/55420) issue seems that it is not completely solved since in the advanced importer the same thing continues to happen.

### Steps to reproduce

- Put a 3D model on the scene
- Open the advanced import
- Disable Auto LOD or whatever you want to change
- See how mesh doesn't change

### Minimal reproduction project

N/A
if (!p_path.is_resource_file() || p_path.begins_with(ProjectSettings::get_singleton()->get_project_data_path())) {
		
		return ResourceUID::INVALID_ID;
	}
	EditorFileSystemDirectory *fs = nullptr;
	int cpos = -1;
	if (!singleton->_find_file(p_path, &fs, cpos)) {
		
		ResourceUID::ID fallback = ResourceLoader::get_resource_uid(p_path);
		if (fallback != ResourceUID::INVALID_ID) {
			return fallback;
		}
		if (p_generate) {
			return ResourceUID::get_singleton()->create_id(); 
		} else {
			return ResourceUID::INVALID_ID;
		}
	} else if (fs->files[cpos]->uid != ResourceUID::INVALID_ID) {
		return fs->files[cpos]->uid;
	} else if (p_generate) {
		return ResourceUID::get_singleton()->create_id(); 
	} else {
		return ResourceUID::INVALID_ID;
	}
}
static void _scan_extensions_dir(EditorFileSystemDirectory *d, HashSet<String> &extensions) {