I'm listening to Coma Divine right now, and I agree that it's probably their most pristine live album performance wise and production wise IMO, even more so than Anesthetize where the technology for live recording/post-production was more advanced.
I wish that SW would've included previously unreleased songs on the Coma Divine reissue. As far as I know, the songs that were added in were previously released on an EP 2 years after the original release. According to SW himself, Voyage 34 (including one of the only performances of Phase II) is one of the songs that remains in the vault. And according to setlist.fm, the remaining songs that also got shelved are Idiot Prayer, Stars Die, The Nostalgia Factory, Dark Matter, Burning Sky, the only performances of Every Home Is Wired (it was played only at the last two Coma Divine shows) and the alleged abysmal PT song, Cryogenics (which was an instrumental if I recall).
SW did say that they used only the recordings from the last two nights as the recording from the first night had technical glitches, but Not Beautiful Anymore was actually played at the first night only, thus contradicting his statement. Maybe it was the only song that was salvaged from the first night.