I agree with what you are saying about different people liking different cuts but your reasoning that clarity can be improved by cutting away imperfections to improve price doesn't really make sense. The carat weight loss alone would offset the clarity gains. Also, when trying to cut for better proportions, you would have a pretty set "shape" and unless the inclusion was exactly on the outside near the edge of a diamond, you'd have a very hard time taking it out.
I can see the reasoning. With my rudimentary knowledge, as much as 50% of the rough is lost. It’s great if you can cut 2 perfect stones out of a rough but sometimes it might be better just cutting one.. and picking a spot within the rough which has the least inclusions perhaps