The more I think about this, the more I think Quan Chi is a serious headache to NRS. Consider this:
The MK9 gamers can be split into 2 categories (probably more, but humor me): 1. The Casual, and 2: The Die Hard.
Right off the bat, the casual gamer may not even know this site or others like it even exists. They don't know what BnB stands for or what a safe jump means. They go to general video game websites for cheats on which krypt to open and what their respective character's stage fatality is. Insofar as that is the case, Quan Chi's unique move set makes him a VERY good character for these people. One could argue that he could be S-tier for the beginner to slightly serious but still mediocore player. They may never know that En trance removes meter from the other player! Quan Chi's Trance, Runes and Boosts could almost be labeled broken by a casual player who either doesn't do his homework, or doesn't have TIME to do his homework because of other responsibilities (other games, kids, wife, job, you name it). There are millions of players out there who fit this mold. Hell, there are casual players out there who don't even have him because they can't beat Shao Kahn in Story mode!
If you try to fix Quan Chi to make him a tournement viable character ("tournaments? people play this outside of their HOMES?!"), you may have effectively ruined the gaming experience for the great many casual players, as NRS may have turned him into a broken character from a for-fun-let's just-play-MK9-to-pass-the-time perspective.
The Die Hard knows better, but is severely outnumbered. We all just need a second to figure Quan Chi out and discover he's not as great (tier wise)as people think. Then again, casual gamers may not know what tier means or why it's important with respect to fighting games. If NRS listens to the Die-Hards, they break Quan Chi for beginners. If they don't, they leave a bad ass character left to wither on the vine at tournaments. They are essentially screwed no matter what they do, because of the character and moveset that they designed.
Of course, I could be trippin balls.