### Godot version

4.2 6da4ad1

### System information

Windows 10.0.19045 - Vulkan (Forward+) - dedicated NVIDIA GeForce GTX 1060 (NVIDIA; 30.0.15.1403) - Intel(R) Core(TM) i7-7700HQ CPU @ 2.80GHz (8 Threads)

### Issue description

![image](https://github.com/godotengine/godot/assets/2223172/d65ab202-93dd-4d83-bcef-c2b34bfa23f3)

In 4.2 dev3:
![image](https://github.com/godotengine/godot/assets/2223172/8621ec24-65d4-490d-bfc1-7e6e8aa3606a)


### Steps to reproduce

1. Create a scene with some children
2. Instantiate it in another scene
3. Enable editable children

### Minimal reproduction project

N/A
ERR_FAIL_COND(!item);
	NodePath np = item->get_metadata(0);
	if (!has_node(np)) {
		return;
	}
	Node *n = get_node(np);
	if (!n) {
		return;
	}
	if (editor_selection->is_selected(n)) {
		if (!item->is_selected(0)) {
			item->select(0);
		}
	} else {
		if (item->is_selected(0)) {
			TreeItem *previous_cursor_item = tree->get_selected();
			item->deselect(0);
			previous_cursor_item->set_as_cursor(0);
		}
	}
	TreeItem *c = item->get_first_child();
	while (c) {
		_update_selection(c);
		c = c->get_next();
	}
}
void SceneTreeEditor::_selection_changed() {