### 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
} else if (dock_slot[i]->get_tab_count() == 0) {
			dock_select->draw_rect(r, unused);
		} else {
			dock_select->draw_rect(r, used);
		}
		for (int j = 0; j < MIN(3, dock_slot[i]->get_tab_count()); j++) {
			int xofs = (r.size.width / 3) * j;
			Color c = used;
			if (i == dock_popup_selected_idx && (dock_slot[i]->get_current_tab() > 3 || dock_slot[i]->get_current_tab() == j)) {
				c = tab_selected;
			}
			dock_select->draw_rect(Rect2(2 + ofs.x + xofs, ofs.y, r.size.width / 3 - 1, 3), c);
		}
	}
}
void EditorNode::_save_editor_layout() {
	if (waiting_for_first_scan) {
		return; 
	}
	Ref<ConfigFile> config;
	config.instantiate();
	
	config->load(EditorPaths::get_singleton()->get_project_settings_dir().path_join("editor_layout.cfg"));
	_save_docks_to_config(config, "docks");
	_save_open_scenes_to_config(config);
	_save_central_editor_layout_to_config(config);
	editor_data.get_plugin_window_layout(config);
	config->save(EditorPaths::get_singleton()->get_project_settings_dir().path_join("editor_layout.cfg"));
}
void EditorNode::_save_docks_to_config(Ref<ConfigFile> p_layout, const String &p_section) {