Some things I'd like to point out:
So far, I've watched Disc 1, and I noticed something in the classic cuts section. You know how at the end of "I Love Trash", Gordon said that Oscar won a trip to the garbage dump, and then looked right at the camera? I'm guessing that when that segment aired originally, they aired the film about garbage right after it.
Also, about "Alphabet Soup," I have no idea why they did this, but the version on there was actually the sweetened version from 1996 or so. They must not have been very careful. And about the closing credits. You noticed how there was a portion of the music missing in between the credits and the CTW notice? I'm guessing that during that time, they had the sponsors AFTER the credits.