Their list wasn't as much of a disaster as the Devin Townsend list, although I feel like Pink Floyd is a tough band for this type of video because the top tier and bottom tier are both obvious, while everything in the middle kinda blurs together and can be hard to differentiate.
I would say the biggest take from the video I disagreed on was their treatment of the debut (which Rudess balanced out a bit). I tend to agree with the major music publications that the debut album is a classic, even though it may be kinda separate from the Floyd discography and overall sound. They kinda wrote the book on psychedelic/art rock with Piper and I think it still holds up as an essential late 60s British rock album. The comparison in the video to Sgt Pepper is also ridiculous. Of course Pepper is a better album, it's by a band that had spent years refining their craft and they also had a giant budget to make it an insane production. Piper is a really competent debut that busts the door down on a lot of psych and prog rock to come.
I also generally disagreed with the Momentary Lapse of Reason praise, although I didn't feel quite as strongly. I just think it's a very weak album and didn't really have the cohesion of other Floyd albums (this was improved with Division Bell). It was interesting to hear Rudess' take on the album though, as I've long felt that A Dramatic Turn of Events shared a lot in common with Momentary Lapse, although I think the Dream Theater album is much more successful in maintaining a classic DT sound, where Momentary Lapse doesn't quite have that Floyd feel for me.
At any rate, here is my list:
S - Wish You Were Here, Animals, Dark Side of the Moon
A - Atom Heart Mother, The Wall, Meddle
B - Piper, Clouds, Final Cut
C - Division Bell, A Saucerful of Secrets, Endless River
D - Ummagumma, More, Momentary Lapse