### 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
ProjectSettings *ps = ProjectSettings::get_singleton();
	PackedStringArray enabled_plugins = ps->get("editor_plugins/enabled");
	for (int i = 0; i < enabled_plugins.size(); ++i) {
		if (enabled_plugins.get(i) == p_name) {
			enabled_plugins.remove_at(i);
			break;
		}
	}
	ps->set("editor_plugins/enabled", enabled_plugins);
}
void EditorNode::_plugin_over_edit(EditorPlugin *p_plugin, Object *p_object) {
	if (p_object) {
		editor_plugins_over->add_plugin(p_plugin);
		p_plugin->make_visible(true);
		p_plugin->edit(p_object);
	} else {
		editor_plugins_over->remove_plugin(p_plugin);
		p_plugin->make_visible(false);
		p_plugin->edit(nullptr);
	}
}
void EditorNode::_resources_changed(const Vector<String> &p_resources) {