### 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
update_spinner->set_visible(EDITOR_GET("interface/editor/show_update_spinner"));
	const bool update_continuously = EDITOR_GET("interface/editor/update_continuously");
	PopupMenu *update_popup = update_spinner->get_popup();
	update_popup->set_item_checked(update_popup->get_item_index(SETTINGS_UPDATE_CONTINUOUSLY), update_continuously);
	update_popup->set_item_checked(update_popup->get_item_index(SETTINGS_UPDATE_WHEN_CHANGED), !update_continuously);
	if (update_continuously) {
		update_spinner->set_tooltip_text(TTR("Spins when the editor window redraws.\nUpdate Continuously is enabled, which can increase power usage. Click to disable it."));
		
		
		
		
		const bool dark_theme = EditorSettings::get_singleton()->is_dark_theme();
		update_spinner->set_self_modulate(
				gui_base->get_theme_color(SNAME("error_color"), SNAME("Editor")) * (dark_theme ? Color(1.1, 1.1, 1.1) : Color(4.25, 4.25, 4.25)));
	} else {
		update_spinner->set_tooltip_text(TTR("Spins when the editor window redraws."));
		update_spinner->set_self_modulate(Color(1, 1, 1));
	}
	OS::get_singleton()->set_low_processor_usage_mode(!update_continuously);
}
void EditorNode::_on_plugin_ready(Object *p_script, const String &p_activate_name) {