The same question that was just answered is similar to this one. Much like the previous question, specific designs will handle rougher waters just fine. The key will be stability. A narrower vessel will require more effort to stay balanced if it is rocking in the water.
Of course, kayaks that can create a little extra lift will also be preferred for rougher waters. This can allow them to remain buoyant, which will, in turn, keep you from getting a bath.