In the attached WAD below, you'll appear in the room (Room #1) showing the issue (It's more obvious when you move towards the 3d floor stucture). You can use the teleporter to go to another replica of the same room (Room #2) where every sector has fog applied to it, including the sector with the 3d floor. You'll notice that the issue is not there anymore.
Spoiler: Room #1
Spoiler: Room #2You'll find some disccusion about this here.
Spoiler: My System Specs (Yeah, I know it's ancient old :p)