### 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
} else if (ED_IS_SHORTCUT("editor/editor_prev", p_event)) {
			_editor_select_prev();
		} else if (ED_IS_SHORTCUT("editor/command_palette", p_event)) {
			_open_command_palette();
		} else {
		}
		if (old_editor != editor_plugin_screen) {
			get_tree()->get_root()->set_input_as_handled();
		}
	}
}
void EditorNode::_update_from_settings() {
	int current_filter = GLOBAL_GET("rendering/textures/canvas_textures/default_texture_filter");
	if (current_filter != scene_root->get_default_canvas_item_texture_filter()) {
		Viewport::DefaultCanvasItemTextureFilter tf = (Viewport::DefaultCanvasItemTextureFilter)current_filter;
		scene_root->set_default_canvas_item_texture_filter(tf);
	}
	int current_repeat = GLOBAL_GET("rendering/textures/canvas_textures/default_texture_repeat");
	if (current_repeat != scene_root->get_default_canvas_item_texture_repeat()) {
		Viewport::DefaultCanvasItemTextureRepeat tr = (Viewport::DefaultCanvasItemTextureRepeat)current_repeat;
		scene_root->set_default_canvas_item_texture_repeat(tr);
	}
	RS::DOFBokehShape dof_shape = RS::DOFBokehShape(int(GLOBAL_GET("rendering/camera/depth_of_field/depth_of_field_bokeh_shape")));
	RS::get_singleton()->camera_attributes_set_dof_blur_bokeh_shape(dof_shape);
	RS::DOFBlurQuality dof_quality = RS::DOFBlurQuality(int(GLOBAL_GET("rendering/camera/depth_of_field/depth_of_field_bokeh_quality")));
	bool dof_jitter = GLOBAL_GET("rendering/camera/depth_of_field/depth_of_field_use_jitter");
	RS::get_singleton()->camera_attributes_set_dof_blur_quality(dof_quality, dof_jitter);
	RS::get_singleton()->environment_set_ssao_quality(RS::EnvironmentSSAOQuality(int(GLOBAL_GET("rendering/environment/ssao/quality"))), GLOBAL_GET("rendering/environment/ssao/half_size"), GLOBAL_GET("rendering/environment/ssao/adaptive_target"), GLOBAL_GET("rendering/environment/ssao/blur_passes"), GLOBAL_GET("rendering/environment/ssao/fadeout_from"), GLOBAL_GET("rendering/environment/ssao/fadeout_to"));
	RS::get_singleton()->screen_space_roughness_limiter_set_active(GLOBAL_GET("rendering/anti_aliasing/screen_space_roughness_limiter/enabled"), GLOBAL_GET("rendering/anti_aliasing/screen_space_roughness_limiter/amount"), GLOBAL_GET("rendering/anti_aliasing/screen_space_roughness_limiter/limit"));
	bool glow_bicubic = int(GLOBAL_GET("rendering/environment/glow/upscale_mode")) > 0;