I had the Boye set and sold it for the Denise set. I had the Denise set and sold it for the KP set and as much as I liked the Denise set, I would never go back.
The only thing that I didn't like about the Denise needles was how thick the cord was. It is extremely pliable but when you get down to the smaller size needles the cable is just as thick as the needle itself and I found it made it harder to move the work.
I personally don't find the organization of the needles a problem. I know exactly where each of my needle points go just at a glance so not really sure what the problem is there.