### 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
if (ext_icon.is_valid()) {
		return ext_icon;
	}
	
	
	const EditorData::CustomType *ctype = ed.get_custom_type_by_name(p_class);
	if (ctype && ctype->icon.is_valid()) {
		return ctype->icon;
	}
	
	
	if (gui_base) {
		if (gui_base->has_theme_icon(p_class, SNAME("EditorIcons"))) {
			return gui_base->get_theme_icon(p_class, SNAME("EditorIcons"));
		}
		if (p_fallback.length() && gui_base->has_theme_icon(p_fallback, SNAME("EditorIcons"))) {
			return gui_base->get_theme_icon(p_fallback, SNAME("EditorIcons"));
		}
	}
	return nullptr;
}
Ref<Texture2D> EditorNode::get_object_icon(const Object *p_object, const String &p_fallback) {
	ERR_FAIL_NULL_V_MSG(p_object, nullptr, "Object cannot be null.");
	Ref<Script> scr = p_object->get_script();
	if (scr.is_null() && p_object->is_class("Script")) {
		scr = p_object;
	}
	return _get_class_or_script_icon(p_object->get_class(), scr, p_fallback);
}
Ref<Texture2D> EditorNode::get_class_icon(const String &p_class, const String &p_fallback) {