### 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 (p_editing_owner) {
		const ObjectID id = p_editing_owner->get_instance_id();
		for (EditorPlugin *plugin : active_plugins[id]) {
			_plugin_over_edit(plugin, nullptr);
		}
		active_plugins.erase(id);
	} else {
		
		
		List<ObjectID> to_remove;
		for (KeyValue<ObjectID, HashSet<EditorPlugin *>> &kv : active_plugins) {
			if (!ObjectDB::get_instance(kv.key)) {
				to_remove.push_back(kv.key);
				for (EditorPlugin *plugin : kv.value) {
					_plugin_over_edit(plugin, nullptr);
				}
			}
		}
		for (const ObjectID &id : to_remove) {
			active_plugins.erase(id);
		}
	}
}
static bool overrides_external_editor(Object *p_object) {