### 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
connect_to_script_mode = p_enable;
	update_tree();
}
void SceneTreeEditor::set_connecting_signal(bool p_enable) {
	connecting_signal = p_enable;
	update_tree();
}
void SceneTreeEditor::_bind_methods() {
	ClassDB::bind_method(D_METHOD("_update_tree"), &SceneTreeEditor::_update_tree, DEFVAL(false)); // Still used by UndoRedo.
	ClassDB::bind_method("_rename_node", &SceneTreeEditor::_rename_node);
	ClassDB::bind_method("_test_update_tree", &SceneTreeEditor::_test_update_tree);
	ClassDB::bind_method(D_METHOD("update_tree"), &SceneTreeEditor::update_tree);
	ADD_SIGNAL(MethodInfo("node_selected"));
	ADD_SIGNAL(MethodInfo("node_renamed"));
	ADD_SIGNAL(MethodInfo("node_prerename"));
	ADD_SIGNAL(MethodInfo("node_changed"));
	ADD_SIGNAL(MethodInfo("nodes_dragged"));
	ADD_SIGNAL(MethodInfo("nodes_rearranged", PropertyInfo(Variant::ARRAY, "paths"), PropertyInfo(Variant::NODE_PATH, "to_path"), PropertyInfo(Variant::INT, "type")));
	ADD_SIGNAL(MethodInfo("files_dropped", PropertyInfo(Variant::PACKED_STRING_ARRAY, "files"), PropertyInfo(Variant::NODE_PATH, "to_path"), PropertyInfo(Variant::INT, "type")));
	ADD_SIGNAL(MethodInfo("script_dropped", PropertyInfo(Variant::STRING, "file"), PropertyInfo(Variant::NODE_PATH, "to_path")));
	ADD_SIGNAL(MethodInfo("rmb_pressed", PropertyInfo(Variant::VECTOR2, "position")));
	ADD_SIGNAL(MethodInfo("open"));
	ADD_SIGNAL(MethodInfo("open_script"));
}
SceneTreeEditor::SceneTreeEditor(bool p_label, bool p_can_rename, bool p_can_open_instance) {