Help with Additional Content

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Did that, they still don't show up in the Level Editor's Entities dropdown, Static Objects dropdown, ect.

You'll need to do one of two things: (1) Place your objects in static_objects and entities in the entities folder of Amnesia, or (2) edit the MainEditorSettings.cfg and modify the locations to point to your story. First method, obviously, isn't what you're looking for. Second method i haven't tested, but it's bound to make the level editor not list the original Amnesia resources.

You don't really need them to be listed in the level editor listings--that's just for convenience.