### 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 < extensions.size(); i++) {
				file->add_filter("*." + extensions[i], extensions[i].to_upper());
			}
			Node *scene = editor_data.get_edited_scene_root();
			if (scene) {
				file->set_current_path(scene->get_scene_file_path());
			};
			file->set_title(p_option == FILE_OPEN_SCENE ? TTR("Open Scene") : TTR("Open Base Scene"));
			file->popup_file_dialog();
		} break;
		case FILE_QUICK_OPEN: {
			quick_open->popup_dialog("Resource", true);
			quick_open->set_title(TTR("Quick Open..."));
		} break;
		case FILE_QUICK_OPEN_SCENE: {
			quick_open->popup_dialog("PackedScene", true);
			quick_open->set_title(TTR("Quick Open Scene..."));
		} break;
		case FILE_QUICK_OPEN_SCRIPT: {
			quick_open->popup_dialog("Script", true);
			quick_open->set_title(TTR("Quick Open Script..."));
		} break;
		case FILE_OPEN_PREV: {
			if (previous_scenes.is_empty()) {
				break;
			}
			opening_prev = true;
			open_request(previous_scenes.back()->get());
			previous_scenes.pop_back();
		} break;