I think is was a mistake what they did with Alex in prototype 2, his fate should've either been left ambiguous or he should've been helping Heller deal with his power and goals in some way (powers acquired through different means than just 'mercer infected him')
And the villain should've also been someone else (not PARIAH, that seems too easy)
The way I see it the reason why Mercer lost is because he had nothing to fight for no motivation or cause except finding out who he was and keeping people at a distance which is the reason why he had a blank stoic face and no emotion whatsoever and never letting get close to him whereas Heller on the other hand had a cause which was finding and saving his daughter Maya and avenging his wife Colette also with having emotions and letting people get close to him making more human than Mercer ever was as a scientist and as a virus. The way the writers wrote the first game really fucked up big time with Alex making come more as a villain rather than a full fledged anti-hero that James seems to fit better cause he cares about innocent people. If Alex does come back it has to be from scratch and one with a sense of morals and human guidelines but without all of his powers and protecting innocent people from criminal scumbags and crime organizations and a new virus that makes him an anti-hero full force along with making look like a badass character but having no memory of his past and not the fucked up emo shit stain in P1 or the piece of shit megalomaniac in P2.
I personally think Heller is way cooler. Alex is your typical grimdark, "misunderstood" anti-hero. That's been done before and is nothing different. Meanwhile Heller has such a more hard-ass disposition and is so angry all the time. His character is more believable and bad-ass.
*Stabs him in the stomach and bashes him in the back with a baseball bat.* Listen and listen good you sick fucking idiot, Heller was nothing but a bullshit protagonist for you sick shit stain fucks to have just because you shits hated Alex with all your dog shit being black hearts. If a third game or a reboot of this shitty sequel is made and James is killed i'm pretty sure all of you sick fucks would cry your eyes out just for the hell of it.
*Blocks that dumbshit, and smacks this half-retarded meta-gamer.* No. You're clearly retarded and all you can do on these comments is curse. Go to bed before I tell your mom you've been playing with the family's laptop again...fucktard.
Uh idiot head, i have my OWN laptop so you might want to rethink that statement. And hey i'm just saying despite Heller being a bad-ass he's crap to me and other people that are somewhat lukewarm to him but still hate him and Prototype 2 despite the two years that have passed.
of course i did. if not i couldnt tell you what i just told. i think it was a pretty nice ending. mercer is awesome of course, but in this story he is evil, and its nearly never that the evil foe wins at the end. so i expected it. and if you are playing on PC the mercer-skin will make you happy maybe^^