### 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
List<StringName> tl;
	theme_base->get_theme()->get_icon_list(SNAME("EditorIcons"), &tl);
	for (const StringName &E : tl) {
		if (!ClassDB::class_exists(E)) {
			continue;
		}
		icon_type_cache[E] = theme_base->get_theme()->get_icon(E, SNAME("EditorIcons"));
	}
}
void EditorNode::_enable_pending_addons() {
	for (uint32_t i = 0; i < pending_addons.size(); i++) {
		set_addon_plugin_enabled(pending_addons[i], true);
	}
	pending_addons.clear();
}
void EditorNode::_file_dialog_register(FileDialog *p_dialog) {