I thought that was what you were asking.
Are not the bees drawing their own comb and placing the comb as they see fit anyways with passages, communication holes, etc., with a Warre hive. They are with mine.
The whole concept of a cold or hot crossing probably goes in the face of Warre's protocol anyways in that he had strong opinions on opening the hive, heat retention, etc. He designed his hive very specifically to have heat retention, and not have beekeepers break the propolis seal every week. His entrance is located well below the brood comb and he kept under supering so "space" was always present, for eliminating swarms (I think bogus) and to keep congestion down. It's not like there should be a "draft" issue, that's for sure.
With all that said, and if you actually picked a location void of wind, with a southern exposure, and kept undersupering, I can't see if it would make a difference in any "cold-warm" considerations. As for bees easily traveling from one box to the other, they leave ample portals and holes to do what they want as they construct the natural comb. I could see that point perhaps in a standard frame, especially with plastic foundation. But with a Warre, and the way the bees make the comb, I am not convince one bit that it makes a difference to stagger the boxes.