### Godot version

4.0.1.official

### System information

Windows 10

### Issue description

I wanted to use a multiple atlas textures to crop out a character from a tilemap while saving all animations in one atlas texture and having other atlas textures inherit the first one and crop out the induvidual frames.

But opening the region editor after using the created atlas texture in the new atlas texture shows the original texture scaled to the size of the cropped texture. Using the editor and setting the correct values works just fine and the preview shows the correct result.

Result:
![screenshot](https://user-images.githubusercontent.com/50096015/227557377-da899d85-f7b7-43f1-847c-79f8b27a64ef.png)


### Steps to reproduce

- Open MRP
- Open "character_sprite_1.tres"
- Click on "Edit Region"

### Minimal reproduction project

[AtlasBug.zip](https://github.com/godotengine/godot/files/11063481/AtlasBug.zip)

const Color member_variable_color = dark_theme ? Color(0.34, 0.7, 1.0).lerp(mono_color, 0.6) : Color(0, 0.4, 0.68, 1);
	const Color mark_color = Color(error_color.r, error_color.g, error_color.b, 0.3);
	const Color bookmark_color = Color(0.08, 0.49, 0.98);
	const Color breakpoint_color = dark_theme ? error_color : Color(1, 0.27, 0.2, 1);
	const Color executing_line_color = Color(0.98, 0.89, 0.27);
	const Color code_folding_color = alpha3;
	const Color search_result_color = alpha1;
	const Color search_result_border_color = dark_theme ? Color(0.41, 0.61, 0.91, 0.38) : Color(0, 0.4, 1, 0.38);
	EditorSettings *setting = EditorSettings::get_singleton();
	String text_editor_color_theme = setting->get("text_editor/theme/color_theme");
	if (text_editor_color_theme == "Default") {
		setting->set_initial_value("text_editor/theme/highlighting/symbol_color", symbol_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/keyword_color", keyword_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/control_flow_keyword_color", control_flow_keyword_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/base_type_color", base_type_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/engine_type_color", engine_type_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/user_type_color", user_type_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/comment_color", comment_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/string_color", string_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/background_color", te_background_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/completion_background_color", completion_background_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/completion_selected_color", completion_selected_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/completion_existing_color", completion_existing_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/completion_scroll_color", completion_scroll_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/completion_scroll_hovered_color", completion_scroll_hovered_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/completion_font_color", completion_font_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/text_color", text_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/line_number_color", line_number_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/safe_line_number_color", safe_line_number_color, true);
		setting->set_initial_value("text_editor/theme/highlighting/caret_color", caret_color, true);