I think the autotuning at points is intentional. It's most apparent on when i learn to sing which includes lines like
"Because a machine
Could burn the life out of me
Not the same when I try
It's just a bad lullaby"
I didn't think about it that way. If that's the case I wish they would have made a note of it in the booklet that it was intentional to match the song/lyrics.
That was the first album he did with a new producer after Gene Eugene died, so I thought maybe the new producer was ok with using Auto-Tune in places.
I can't remember if that is the main place where it sticks out for me though.
I'm listening to it again and I haven't heard any blatant use of auto-tune. The vocals are heavily processed, but that's not one of the effects that I'm hearing. Delay, verb, and heavy EQing. I hear a little at the end of the lines on "Can You Play Drums?" but I think it's used as an effect more than simple pitch correction since it's at the same place each time.
I was wrong about the effect on "When I Learn To Sing." It seems to be more of a flange effect.
I'm kind of glad you mentioned the auto-tune. I've never noticed the attention to detail in varied vocal effects on the album. I might have to borrow a few ideas...