He's got pics on FB micah, and that doesn't seem to be the issue.
I'd (obviously) check the hull panel dimensions, make sure the corners joined approximately corner to corner without slipping past each other, check the bottom is fair (the hull bottom has very little curvature between f18 and f89, so it's easy to warp into a wavy or lumpy shape), then check your frame size again. If all good (it probably is), then just get the sheer the right distance apart and then make the frame fit.
I found that the frames held the deck about 1/4" above the hull sides through the entire middle of the boat. So the hull sides didn't quite reach the frame corners at the top. The frame curves were added to the plan, but the hull side shape has never been adjusted to account for this. I think this gap is the result, but it's a pretty minor issue if you have a sheer clamp and just plane it to a fair curve hitting the frame tops, then fill the little 1/4" x 1/4" gap above the hull panel. Then radius the edge and most of the gap gets cut away, anyway.
Can't wait to see micah's upside down jig-built hull when he's done!