### 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
for (int i = 0; i < editor_data.get_edited_scene_count(); i++) {
					if (editor_data.get_scene_path(i) == p_file && i != scene_idx) {
						same_open_scene = true;
					}
				}
				if (same_open_scene) {
					show_warning(TTR("Can't overwrite scene that is still open!"));
					return;
				}
				save_default_environment();
				_save_scene_with_preview(p_file, scene_idx);
				_add_to_recent_scenes(p_file);
				save_editor_layout_delayed();
				if (scene_idx != -1) {
					_discard_changes();
				}
			}
		} break;
		case FILE_SAVE_AND_RUN: {
			if (file->get_file_mode() == EditorFileDialog::FILE_MODE_SAVE_FILE) {
				save_default_environment();
				_save_scene_with_preview(p_file);
				project_run_bar->play_custom_scene(p_file);
			}
		} break;
		case FILE_SAVE_AND_RUN_MAIN_SCENE: {
			ProjectSettings::get_singleton()->set("application/run/main_scene", p_file);
			ProjectSettings::get_singleton()->save();
			if (file->get_file_mode() == EditorFileDialog::FILE_MODE_SAVE_FILE) {
				save_default_environment();