### 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
int new_index = editor_data.get_edited_scene();
	int old_index = new_index;
	if (new_index > 0) {
		new_index = new_index - 1;
	} else if (editor_data.get_edited_scene_count() > 1) {
		new_index = 1;
	} else {
		editor_data.add_edited_scene(-1);
		new_index = 1;
	}
	if (p_change_tab) {
		_scene_tab_changed(new_index);
	}
	editor_data.remove_scene(old_index);
	_update_title();
	_update_scene_tabs();
}
void EditorNode::_remove_scene(int index, bool p_change_tab) {
	
	editor_data.clear_script_icon_cache();
	if (editor_data.get_edited_scene() == index) {
		
		_remove_edited_scene(p_change_tab);
	} else {
		
		editor_data.remove_scene(index);
	}
}
void EditorNode::set_edited_scene(Node *p_scene) {