overall, the only full songs i don't dig are TDS and HTF. the rest are quality songwriting, despite JR's reduced role (a serious problem on the whole thing!).
my primary issue with TOT is that it's the first (chronologically) time in the discography when the songwriting started going all out for no warranted reason. to say that another way, there are lengthy sections in most of the songs that are either unnecessary or overlong, and not because i sit there and say it's too much — the songs don't support, for instance, the incessant repetition all over HTF, or the way over-extended TDS ending. the band had a serious problem editing themselves; even AIA overstays its welcome with unneeded repetition.
i also get a bit overzealous about how much of it sounds like a parody: a lot of TDS and HTF sound like dads trying to sound like angsty teenagers, and they went way overboard toward the end of ITNOG (insanely wacky circus-solo over the "exotic" bassline/"eat my ass and balls," though it was obscured well tbf), again for no reason.
from then on, there's been at least one song on every album where they go all out for no reason other than to show off in the middle of, y'know, well written songs that the band is so damn good at. these specific musicians with the balance between amazing songwriting that is intuitive and catchy vs. prog excess is what makes the DT sound, so when it goes out of balance, it quickly descends into the parodic, and i'd argue TOT is where the issue came to the fore.