### 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
switch (current_menu_option) {
		case FILE_NEW_INHERITED_SCENE: {
			Node *scene = editor_data.get_edited_scene_root();
			
			if (!scene) {
				_menu_option_confirm(FILE_CLOSE, true);
			}
			load_scene(p_file, false, true);
		} break;
		case FILE_OPEN_SCENE: {
			load_scene(p_file);
		} break;
		case SETTINGS_PICK_MAIN_SCENE: {
			ProjectSettings::get_singleton()->set("application/run/main_scene", p_file);
			ProjectSettings::get_singleton()->save();
			
			project_run_bar->play_main_scene((bool)pick_main_scene->get_meta("from_native", false));
		} break;
		case FILE_CLOSE:
		case SCENE_TAB_CLOSE:
		case FILE_SAVE_SCENE:
		case FILE_SAVE_AS_SCENE: {
			int scene_idx = (current_menu_option == FILE_SAVE_SCENE || current_menu_option == FILE_SAVE_AS_SCENE) ? -1 : tab_closing_idx;
			if (file->get_file_mode() == EditorFileDialog::FILE_MODE_SAVE_FILE) {
				bool same_open_scene = false;