### 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
for (int i = 0; i < plugins_list.size(); i++) {
		plugins_list[i]->make_visible(p_visible);
	}
}
void EditorPluginList::edit(Object *p_object) {
	for (int i = 0; i < plugins_list.size(); i++) {
		plugins_list[i]->edit(p_object);
	}
}
bool EditorPluginList::forward_gui_input(const Ref<InputEvent> &p_event) {
	bool discard = false;
	for (int i = 0; i < plugins_list.size(); i++) {
		if (plugins_list[i]->forward_canvas_gui_input(p_event)) {
			discard = true;
		}
	}
	return discard;
}
EditorPlugin::AfterGUIInput EditorPluginList::forward_3d_gui_input(Camera3D *p_camera, const Ref<InputEvent> &p_event, bool serve_when_force_input_enabled) {