JB had three years to watch Tebow, plus a year or so to watch Newton and think to himself, "Hmmm. I should consider running. I don't think I fit this offense--it looks nothing like the offense I used in high school." OR, he could take control of his destiny in 2010 after getting sacked, knocked around, and demolished by walking up to his offensive line and saying, "Pouncey! Really? Snap the MF'ing ball! You! Block that guy!" There is no emotion, no fire, no intensity, no leadership. I am not saying that he needs to be rah-rah-sis-boom-ba like Tebow, but one thing that all the other #12s did, including the rather reserved Chris Leak, was make on-field adjustments and lead the team. An on-field adjustment does not mean calling one's own plays per se, even though that would be funny and exciting to see, but it does mean communicating with your offense and talking to the OC to give feedback such as, "Umm. Coach? That last play didn't work because I only got 2 seconds of pass protection. Got any ideas? I was thinking of rolling left or maybe having Nixon not pull so far."
I've played football before, and I know that one has to stick within the confines of the coach's offense. However, a leader, a field general takes command of the offense and helps the coaches with on-field feedback of the plays called. We like to compare JB to Chris Leak. Those two are very similar--both quiet and reserved. I can recall seeing Leak give feedback to Dan Mullen. I suppose he could have been telling a joke or complaining, but from my armchair QB couch it looked like he was saying something that led to an adjustment in the game. The coaches are not perfect. Before last week, Urban Meyer did not seem to wear the headset a lot. Even then, there is only so much you can see from the booth to relay to Urban Meyer. The best feedback comes from an on-field leader of the offense. That is where JB fails. It's not where Burton succeeds, but he does not make any of the reads that JB does and there is less feedback to give.
I know this answer is getting long-winded, but I have debated this a lot at work. In a passing situation the o-line needs to hold for about 4-5 maybe up to 7 seconds on a deep route before the QB makes his three or four reads and throws the ball. In a zone read, the QB really only needs 2-4 seconds depending on how strong the line is before throwing the ball into a preset pattern or running the option. If the line does not hold, the QB's reads will become simple dives with no reads or options to the edges. Trey Burton has made a couple reads to throw, or at least faked it, and you can see that by the time he pulls up to throw and then pulls down to run that the line has already collapsed at the edges. The only place to throw or run by that point is to move up the pocket by the line. JB can't throw from that spot, except against a moderate pass rush--the pocket is not a standard pocket. Trey Burton can't throw from there because he does not have the release--he throws best back further in the pocket.
After three years of watching the offense, I would hope JB can say the same things to his coach based on his experiences which are a lot more accurate and more relevant than my armchair quarterback analysis from my couch.