### 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
current_menu_option = -1;
	if (accept) {
		accept->set_ok_button_text(p_title);
		accept->set_text(p_text);
		EditorInterface::get_singleton()->popup_dialog_centered(accept);
	}
}
void EditorNode::show_save_accept(const String &p_text, const String &p_title) {
	current_menu_option = -1;
	if (save_accept) {
		save_accept->set_ok_button_text(p_title);
		save_accept->set_text(p_text);
		EditorInterface::get_singleton()->popup_dialog_centered(save_accept);
	}
}
void EditorNode::show_warning(const String &p_text, const String &p_title) {
	if (warning) {
		warning->set_text(p_text);
		warning->set_title(p_title);
		EditorInterface::get_singleton()->popup_dialog_centered(warning);
	} else {
		WARN_PRINT(p_title + " " + p_text);
	}
}
void EditorNode::_copy_warning(const String &p_str) {