"New Scene," should be created with default startup file settings

Currently when a new scene is created from scratch, it loads all the default settings that launch with Blender, meaning Cycles GPU performance settings are reset, as well as render window preferences and other things.

I know that I can create a new scene using "copy settings," but sometimes there are certain things that I actually do want to change from scene to scene.

I've already told Blender what I want my "default," to be when I created a custom startup file, so it would be nice (if not expected) if Blender could create new scenes with my default settings instead of the ones that come with Blender.

EDIT: For some clarification, my startup file is working fine when I open up blender. The issue is that when I add a new scene using the "new scene," button in the top right corner of the screen it the new scene starts off with factory defaults instead of my default startup file.