Correct, this makes the piece a universal fit, but creates a port issue. About the best I could do is design the ITB side with enough material to allow serious porting potential for any body's individual needs. The issue with making something that isn't restrictive and has a smooth transition is there needs to be distance to create the transition. Otherwise it's too sharp. Using the stock lower manifold puts the universal adapter far enough from the head that it needs to be compact as possible. Otherwise the ITBs stick out so far that a plenum would have to be very narrow, or the velocity stacks would have to curve 90* up or down to allow placement of a larger plenum. Again, I can give an accurate measurement for shock tower clearance from the face of the ITBs if I can get a measurement from the lower manifold to the shock tower.
Here is an image of the lower manifold ports and the ITB ports. The inner diameter of the holes is close to those on the ITBs, but not exact...I don't have them sitting in front of me. I do know that the silvertop ITBs are 42mm and the blacktops are 45mm (but not a true circle). The bore in the drawings are just under the blacktop itb size.
So the issue is trying to create a smooth transition in what I'm assuming to be a very limited space considering that the ITBs still need to be sandwiched in somehow.