Is the scene misplaced? Is it necessary to move the story forward at that point? At all? Am I missing critical details? For example, yesterday I realized that the awkward flow was because the scene in question had been pushed ahead an entire 3-4 chapters in the top secret outline of my mind. It doesn't make any sense at all there. But when the time comes, it will work out just right.
Looking forward to writing again, now that we have a better file set up to work from.