### 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
Array rc = EditorSettings::get_singleton()->get_project_metadata("recent_files", "scenes", Array());
	recent_scenes->clear();
	String path;
	for (int i = 0; i < rc.size(); i++) {
		path = rc[i];
		recent_scenes->add_item(path.replace("res:", ""), i);
	}
	recent_scenes->add_separator();
	recent_scenes->add_shortcut(ED_SHORTCUT("editor/clear_recent", TTR("Clear Recent Scenes")));
	recent_scenes->reset_size();
}
void EditorNode::_quick_opened() {
	Vector<String> files = quick_open->get_selected_files();
	bool open_scene_dialog = quick_open->get_base_type() == "PackedScene";
	for (int i = 0; i < files.size(); i++) {
		String res_path = files[i];
		List<String> scene_extensions;
		ResourceLoader::get_recognized_extensions_for_type("PackedScene", &scene_extensions);
		if (open_scene_dialog || scene_extensions.find(files[i].get_extension().to_lower())) {
			open_request(res_path);
		} else {
			load_resource(res_path);
		}
	}
}
void EditorNode::_project_run_started() {