### 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
case SETTINGS_LAYOUT_DELETE: {
			current_menu_option = p_id;
			layout_dialog->set_title(TTR("Delete Layout"));
			layout_dialog->set_ok_button_text(TTR("Delete"));
			layout_dialog->set_name_line_enabled(false);
			layout_dialog->popup_centered();
		} break;
		case SETTINGS_LAYOUT_DEFAULT: {
			_load_docks_from_config(default_layout, "docks");
			_save_editor_layout();
		} break;
		default: {
			Ref<ConfigFile> config;
			config.instantiate();
			Error err = config->load(EditorSettings::get_singleton()->get_editor_layouts_config());
			if (err != OK) {
				return; 
			}
			_load_docks_from_config(config, editor_layouts->get_item_text(p_id));
			_save_editor_layout();
		}
	}
}
void EditorNode::_scene_tab_script_edited(int p_tab) {
	Ref<Script> scr = editor_data.get_scene_root_script(p_tab);
	if (scr.is_valid()) {
		InspectorDock::get_singleton()->edit_resource(scr);
	}
}
void EditorNode::_proceed_closing_scene_tabs() {