### 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
accept->queue_free();
			}
			if (save_accept) {
				save_accept->queue_free();
			}
			editor_data.save_editor_external_data();
			FileAccess::set_file_close_fail_notify_callback(nullptr);
			log->deinit(); 
			editor_data.clear_edited_scenes();
		} break;
		case NOTIFICATION_READY: {
			{
				_initializing_plugins = true;
				Vector<String> addons;
				if (ProjectSettings::get_singleton()->has_setting("editor_plugins/enabled")) {
					addons = GLOBAL_GET("editor_plugins/enabled");
				}
				for (int i = 0; i < addons.size(); i++) {
					set_addon_plugin_enabled(addons[i], true);
				}
				_initializing_plugins = false;
				if (!pending_addons.is_empty()) {
					EditorFileSystem::get_singleton()->connect("script_classes_updated", callable_mp(this, &EditorNode::_enable_pending_addons));
				}
			}
			RenderingServer::get_singleton()->viewport_set_disable_2d(get_scene_root()->get_viewport_rid(), true);
			RenderingServer::get_singleton()->viewport_set_environment_mode(get_viewport()->get_viewport_rid(), RenderingServer::VIEWPORT_ENVIRONMENT_DISABLED);
			feature_profile_manager->notify_changed();
			_select_default_main_screen_plugin();