### 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
vbc->add_child(disk_changed_list);
		disk_changed_list->set_v_size_flags(Control::SIZE_EXPAND_FILL);
		disk_changed->connect("confirmed", callable_mp(this, &EditorNode::_reload_modified_scenes));
		disk_changed->connect("confirmed", callable_mp(this, &EditorNode::_reload_project_settings));
		disk_changed->set_ok_button_text(TTR("Reload"));
		disk_changed->add_button(TTR("Resave"), !DisplayServer::get_singleton()->get_swap_cancel_ok(), "resave");
		disk_changed->connect("custom_action", callable_mp(this, &EditorNode::_resave_scenes));
	}
	gui_base->add_child(disk_changed);
	add_editor_plugin(memnew(AnimationPlayerEditorPlugin));
	add_editor_plugin(memnew(AnimationTrackKeyEditEditorPlugin));
	add_editor_plugin(memnew(CanvasItemEditorPlugin));
	add_editor_plugin(memnew(Node3DEditorPlugin));
	add_editor_plugin(memnew(ScriptEditorPlugin));
	EditorAudioBuses *audio_bus_editor = EditorAudioBuses::register_editor();
	ScriptTextEditor::register_editor(); 
	TextEditor::register_editor();
	if (AssetLibraryEditorPlugin::is_available()) {
		add_editor_plugin(memnew(AssetLibraryEditorPlugin));
	} else {
		print_verbose("Asset Library not available (due to using Web editor, or SSL support disabled).");
	}
	
	raise_bottom_panel_item(AnimationPlayerEditor::get_singleton());
	add_editor_plugin(VersionControlEditorPlugin::get_singleton());
	vcs_actions_menu = VersionControlEditorPlugin::get_singleton()->get_version_control_actions_panel();
	vcs_actions_menu->set_name("Version Control");
	vcs_actions_menu->connect("index_pressed", callable_mp(this, &EditorNode::_version_control_menu_option));
	vcs_actions_menu->add_item(TTR("Create Version Control Metadata"), RUN_VCS_METADATA);
	vcs_actions_menu->add_item(TTR("Version Control Settings"), RUN_VCS_SETTINGS);