Gonna throw the assumption that most of the default animations were just altered enough to differentiate from the 1.0 counterparts due to the limited time there was during the 2.0 rebuild/reboot.

That being said, it's not an excuse for janky animations and I wouldn't mind the following changed;
-The aformentioned cutscene 'start, stop, spin, stop, start' thing. C'mon, when WoW or GW cutscenes have more fluid animaton, you know something is amiss.
-Lalafell walking animations. They look to have made a mess and are waddling to the nearest rest-room.
-Fem'ra running (not sprinting) animations. Looks stiff and robotic. I guess the same can be said for the males though I don't play one, so I can't see it from the back.
-Maleqo'te sitting. Really don't need the squat thing. And their idle 'claw hands' thing. We get it, they're cat people...

That's all I can think of off the top of my head. I'll edit as/when if more come to me.