### 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
eta.exitcode = 255;
	int prev_len = 0;
	eta.execute_output_thread.start(_execute_thread, &eta);
	while (!eta.done.is_set()) {
		{
			MutexLock lock(eta.execute_output_mutex);
			if (prev_len != eta.output.length()) {
				String to_add = eta.output.substr(prev_len, eta.output.length());
				prev_len = eta.output.length();
				execute_outputs->add_text(to_add);
				DisplayServer::get_singleton()->process_events(); 
				Main::iteration();
			}
		}
		OS::get_singleton()->delay_usec(1000);
	}
	eta.execute_output_thread.wait_to_finish();
	execute_outputs->add_text("\nExit Code: " + itos(eta.exitcode));
	if (execute_output_dialog) {
		if (p_close_on_errors && eta.exitcode != 0) {
			execute_output_dialog->hide();
		}
		if (p_close_on_ok && eta.exitcode == 0) {
			execute_output_dialog->hide();
		}
		execute_output_dialog->get_ok_button()->set_disabled(false);
	}
	return eta.exitcode;
}
void EditorNode::notify_settings_changed() {