Honestly, A Nightmare To Remember really is the culmination of MP's tenure as a Dream Theater producer. Every creative choice he'd made for the last two or three albums beforehand was leading up to this specific song. It truly exemplifies what Dream Theater was all about in 2009, a band that was constantly incorporating into itself A. harsh vocals, B. very utilitarian, often indulgent, soloing tradeoffs and unisons, C. very mainstream-y metal riffage and drumming (e.g. the blastbeats at the end), D. very long song lengths, and E. marked delineation between "heavy" parts and "soft" parts, with very little blending of either style into the other. I really think that ANTR pushed these elements as far as possible, with ADTOE being the logical reaction just two years later.
With that in mind, while I prefer James' attempt at the passage in question, I really don't mind Mike's either anymore, at least the take that made it into the album. Very cool that we get to see these extras from time to time.