It's really going to vary with the angler. If I were fishing primarily flat water and had no concerns about dragging on the bottom, I'd opt for something with a pedal drive, but for my fishing it would be a total disaster. Likewise, some might find sit ins better, whereas many of us prefer a sit on top. If you can't bend over well, which is a problem for me, you really need a raised seat because traditional kayak posture is impossible for me for a long day.
Were you asking the question for purposes of discussion generation, or for advice on a kayak for yourself? If it's the latter, knowing more about your type of fishing and your preferences and physical stature and condition would be helpful as people try to assist you with useful information.
Jim