### 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
current_menu_option = p_id;
			layout_dialog->set_title(TTR("Save Layout"));
			layout_dialog->set_ok_button_text(TTR("Save"));
			layout_dialog->set_name_line_enabled(true);
			layout_dialog->popup_centered();
		} break;
		case SETTINGS_LAYOUT_DELETE: {
			current_menu_option = p_id;
			layout_dialog->set_title(TTR("Delete Layout"));
			layout_dialog->set_ok_button_text(TTR("Delete"));
			layout_dialog->set_name_line_enabled(false);
			layout_dialog->popup_centered();
		} break;
		case SETTINGS_LAYOUT_DEFAULT: {
			_load_docks_from_config(default_layout, "docks");
			_save_editor_layout();
		} break;
		default: {
			Ref<ConfigFile> config;
			config.instantiate();
			Error err = config->load(EditorSettings::get_singleton()->get_editor_layouts_config());
			if (err != OK) {
				return; 
			}
			_load_docks_from_config(config, editor_layouts->get_item_text(p_id));
			_save_editor_layout();
		}
	}
}
void EditorNode::_scene_tab_script_edited(int p_tab) {