I whole-heartedly agree that the best Pink Floyd was when Gilmour and Waters were equal driving forces in the band.
That said, for me it's no contest at all: I prefer both the Gilmour led PF and "solo" Gilmour albums to "Final Cut" and Roger Waters solo albums, exponentially. FC is a very weak album. I almost never play it. I play Momentary Lapse and Division Bell quite frequently. Both are excellent.
I saw Gilmour's tour this year - the guy still has it, big time. It was a fantastic show.