### 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
#include "editor/plugins/node_3d_editor_plugin.h"
#include "editor/plugins/packed_scene_translation_parser_plugin.h"
#include "editor/plugins/root_motion_editor_plugin.h"
#include "editor/plugins/script_text_editor.h"
#include "editor/plugins/text_editor.h"
#include "editor/plugins/version_control_editor_plugin.h"
#include "editor/plugins/visual_shader_editor_plugin.h"
#include "editor/progress_dialog.h"
#include "editor/project_settings_editor.h"
#include "editor/register_exporters.h"
#include "editor/scene_tree_dock.h"
#include "editor/window_wrapper.h"
#include <stdio.h>
#include <stdlib.h>
EditorNode *EditorNode::singleton = nullptr;
static const String META_TEXT_TO_COPY = "text_to_copy";
static const String EDITOR_NODE_CONFIG_SECTION = "EditorNode";
void EditorNode::disambiguate_filenames(const Vector<String> p_full_paths, Vector<String> &r_filenames) {
	ERR_FAIL_COND_MSG(p_full_paths.size() != r_filenames.size(), vformat("disambiguate_filenames requires two string vectors of same length (%d != %d).", p_full_paths.size(), r_filenames.size()));
	
	
	Vector<RBSet<int>> index_sets;
	HashMap<String, int> scene_name_to_set_index;
	for (int i = 0; i < r_filenames.size(); i++) {
		String scene_name = r_filenames[i];
		if (!scene_name_to_set_index.has(scene_name)) {
			index_sets.append(RBSet<int>());
			scene_name_to_set_index.insert(r_filenames[i], index_sets.size() - 1);
		}
		index_sets.write[scene_name_to_set_index[scene_name]].insert(i);