### Godot version

3.5.2.stable, 4.0.1.stable

### System information

Arch Linux

### Issue description

When the `Show Hidden Files` property is enabled in the Editor Settings:
![image](https://user-images.githubusercontent.com/6501975/226908540-8e70e520-3dcd-46e4-beaf-103ac176c1de.png)
Any `FileDialog` nodes from the project will inherit this setting, and their `Show Hidden Files` property is set to true everytime the scene is re-opened:

https://user-images.githubusercontent.com/6501975/226909135-a8fafdf7-ca36-40aa-b69a-a7baf2d7ae4f.mp4


This occurs on 3.5.2 as well.

### Steps to reproduce

- Enable `Show Hidden Files` property in the Editor Settings:
    - Reload Godot for the bug to occur
- Create a FileDialog node, and set it's `Show Hidden Files` property to false
- Save and close the scene, and reopen it
- The `Show Hidden Files` property is reset to true.

### Minimal reproduction project

N/A
ERR_FAIL_COND_V_MSG(p_class.is_empty(), nullptr, "Class name cannot be empty.");
	Ref<Script> scr;
	if (ScriptServer::is_global_class(p_class)) {
		scr = EditorNode::get_editor_data().script_class_load_script(p_class);
	}
	return _get_class_or_script_icon(p_class, scr, p_fallback);
}
bool EditorNode::is_object_of_custom_type(const Object *p_object, const StringName &p_class) {
	ERR_FAIL_COND_V(!p_object, false);
	Ref<Script> scr = p_object->get_script();
	if (scr.is_null() && Object::cast_to<Script>(p_object)) {
		scr = p_object;
	}
	if (scr.is_valid()) {
		Ref<Script> base_script = scr;
		while (base_script.is_valid()) {
			StringName name = EditorNode::get_editor_data().script_class_get_name(base_script->get_path());
			if (name == p_class) {
				return true;
			}
			base_script = base_script->get_base_script();
		}
	}
	return false;
}
void EditorNode::progress_add_task(const String &p_task, const String &p_label, int p_steps, bool p_can_cancel) {