Hey guys. Just to follow up with my original problem, Tim Kindberg is right. Lectora allows us to give objects on stage a class name, but the autogenerated code is more specific in their css selection than our assigned class names. My original goal was to create reusuable objects attached to GSAP animation, but it looks like I'll have to create the content, generate the page, and crack open the source code to get the proper selectors. It's semi possible with jQuery selectors.
TweenMax.to(".text93Font1"), .4, {color:"#FF0000});
vs
TweenMax.to($("div.question > p > span"), .4, {color:"#FF0000};
It still requires me to check the HTML structure, but it's progress. Color, skew, and rotation now works, though I haven't gotten any 3D properties to tween in Lectora yet.