### Godot version

4.0 9f68d06

### System information

Windows 10 x64

### Issue description

When changing any property of tile source, e.g. name:
![image](https://user-images.githubusercontent.com/2223172/219977766-9babbd6c-cd75-41a0-a167-fe6da039d05e.png)
This error appears in the output:
```
UndoRedo history mismatch: expected 0, got 2.
Set name
```
It means that there is an undo action that starts with a global object and continues with a scene one.

Only happens when the TileSet is built-in and it makes the changes to the tileset being registered as global, i.e. not related to its scene (which results in history inconsistency after closing the scene).

I did some debugging and the action comes from inspector, which edits TileSetAtlasSourceEditor and then TileSetAtlasSource. I don't know what exactly triggers it; the properties should be only set on TileSetAtlasSource.

### Steps to reproduce

1. Add scene
2. Add tilemap
3. Add tileset (don't save it to a file)
4. Edit tileset
5. Add atlas source (e.g. drop icon.svg)
6. Change atlas name
7. Observe output

### Minimal reproduction project

N/A
_save_scene_with_preview(p_file);
				project_run_bar->play_main_scene((bool)pick_main_scene->get_meta("from_native", false));
			}
		} break;
		case FILE_EXPORT_MESH_LIBRARY: {
			Ref<MeshLibrary> ml;
			if (file_export_lib_merge->is_pressed() && FileAccess::exists(p_file)) {
				ml = ResourceLoader::load(p_file, "MeshLibrary");
				if (ml.is_null()) {
					show_accept(TTR("Can't load MeshLibrary for merging!"), TTR("OK"));
					return;
				}
			}
			if (ml.is_null()) {
				ml = Ref<MeshLibrary>(memnew(MeshLibrary));
			}
			MeshLibraryEditor::update_library_file(editor_data.get_edited_scene_root(), ml, true, file_export_lib_apply_xforms->is_pressed());
			Error err = ResourceSaver::save(ml, p_file);
			if (err) {
				show_accept(TTR("Error saving MeshLibrary!"), TTR("OK"));
				return;
			} else if (ResourceCache::has(p_file)) {
				
				ResourceLoader::load(p_file)->reload_from_file();
			}
		} break;
		case RESOURCE_SAVE:
		case RESOURCE_SAVE_AS: {
			ERR_FAIL_COND(saving_resource.is_null());
			save_resource_in_path(saving_resource, p_file);