If you can go over 60 mph, 36 Skater is KING. In 4-5 footers (closely spaced), your in for a chitty ride in anything. Here the advantage goes to the big V bottom because you can plow along at speeds up to maybe 45 with out too much discomfort. A cat at these speeds has two problems. First, the tunnel (flat bottom) takes hits from the waves and humps you to death. Second, part of these waves hitting the tunnel will be forced back out the front of the tunnel and you drive thru the spray. This can be OK if your wearing a bathing suit, it's over 90 degrees, and fresh water.
Therefore if you have to go out in the rough stuff take a big V.
If you run a 36 skater in rough stuff, over 60, you could trip and stuff, or hook a sponson and roll. Neither is heathy.
Going over 100 in a 36 can get boring, in a V bottom it's exciting because it's so scary.