### 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
current_menu_option = -1;
	if (accept) {
		accept->set_ok_button_text(p_title);
		accept->set_text(p_text);
		EditorInterface::get_singleton()->popup_dialog_centered(accept);
	}
}
void EditorNode::show_save_accept(const String &p_text, const String &p_title) {
	current_menu_option = -1;
	if (save_accept) {
		save_accept->set_ok_button_text(p_title);
		save_accept->set_text(p_text);
		EditorInterface::get_singleton()->popup_dialog_centered(save_accept);
	}
}
void EditorNode::show_warning(const String &p_text, const String &p_title) {
	if (warning) {
		warning->set_text(p_text);
		warning->set_title(p_title);
		EditorInterface::get_singleton()->popup_dialog_centered(warning);
	} else {
		WARN_PRINT(p_title + " " + p_text);
	}
}
void EditorNode::_copy_warning(const String &p_str) {