The problem with EJ is that, we still don't really know what we have. He has looked very good at time, and has looked like a lost rookie at times.
My biggest concerns with him is (besides the early run of injuries): He does not appear to have that on the edge, reckless confidence, "do hard things" attitude that all great QBs have. He needs to show he has the moxy to take some risks and make difficult throws once in awhile. He always seems abundantly cautious in his decision making (reminds me a lot of "Trentative" in that respect). Even when he decides to run on occasion, he never really seems committed to it.
Thad Lewis, while maybe not having the natural skills and size of Manuel, does show that kind of moxy. He is, however, best suited for the back-up role, and I think he is a very valuable asset to have on any team. And, he has the confidence of his teammates, he has proven that they can win with him. That is an under appreciated, but extremely important player/role on any team.
Back to EJ: What I really wonder about concerning him is, how much does coaching comes into his play? Is he limited? over cautious? because Hackett and company are making him that way, or is it him? While this is hard to measure, the eyeball test seems to suggest the offense doesn't have that same level of shyness and timidity when Lewis is in there?
So back to my point: I don't think we know what we have yet with EJ, and unfortunately only time will tell so we're going to have to wait until next year to get a better read on that. We all hope he's the answer, but there just isn't enough evidence yet to come to a conclusion. That being said, this is the NFL, and time waits for no one. If he doesn't prove it early next year, we could be starting all over again . . . and, make sure you have Thad wrapped up and ready to go. He may be needed sooner then we want, but he's not a bad #2 option.