### 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
project_run_bar->stop_child_process(p_pid);
}
Ref<Script> EditorNode::get_object_custom_type_base(const Object *p_object) const {
	ERR_FAIL_COND_V(!p_object, nullptr);
	Ref<Script> scr = p_object->get_script();
	if (scr.is_valid()) {
		
		
		
		
		
		
		StringName base = scr->get_instance_base_type();
		if (base != StringName() && EditorNode::get_editor_data().get_custom_types().has(base)) {
			const Vector<EditorData::CustomType> &types = EditorNode::get_editor_data().get_custom_types()[base];
			Ref<Script> base_scr = scr;
			while (base_scr.is_valid()) {
				for (int i = 0; i < types.size(); ++i) {
					if (types[i].script == base_scr) {
						return types[i].script;
					}
				}
				base_scr = base_scr->get_base_script();
			}
		}
	}
	return nullptr;
}
StringName EditorNode::get_object_custom_type_name(const Object *p_object) const {