Someone has put together a quick compiliation of the biggest differences. This is a great visual guide, and - IMO - much more useful than still screenshots. There are a few of us here I think taht aren't quite sure on the differences, so I thought I'd post it.
A Goon in a Gaggle of 'em
It's a good comparison but why is the youtube video in a 16x9 frame? I hope we can still upload in 4x3 because I want to add a lot of videos someday. Sure it's a widescreen video but it's letterboxed. I suppose it would have been clever to window box the original version and fill the screen with the SE just so people also got a quick lesson in what animorphic means.
Take back the trilogy. Execute Order '77