### 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 (p_what) {
		case NOTIFICATION_ENTER_TREE:
		case NOTIFICATION_THEME_CHANGED: {
			tool_setup_atlas_source_button->set_icon(get_theme_icon(SNAME("Tools"), SNAME("EditorIcons")));
			tool_select_button->set_icon(get_theme_icon(SNAME("ToolSelect"), SNAME("EditorIcons")));
			tool_paint_button->set_icon(get_theme_icon(SNAME("CanvasItem"), SNAME("EditorIcons")));
			tools_settings_erase_button->set_icon(get_theme_icon(SNAME("Eraser"), SNAME("EditorIcons")));
			tool_advanced_menu_button->set_icon(get_theme_icon(SNAME("GuiTabMenuHl"), SNAME("EditorIcons")));
			resize_handle = get_theme_icon(SNAME("EditorHandle"), SNAME("EditorIcons"));
			resize_handle_disabled = get_theme_icon(SNAME("EditorHandleDisabled"), SNAME("EditorIcons"));
		} break;
		case NOTIFICATION_INTERNAL_PROCESS: {
			if (tile_set_changed_needs_update) {
				
				read_only = false;
				
				if (tile_set.is_valid()) {