I read an article a while back, and it was opining that the "dink and dunk" is where the NFL is going now. With the increased awareness and efficiency of pass rush, along with more and more CBs that are getting larger, faster and more physical, offenses are finding it increasingly hard to go vertical. Ironically enough, our offense is built to go more vertical than most teams. A rugged, run based offense with good play action is a better recipe to go deep than a spread offense.
Look at the QBs with the best stats, Brady, Rodgers, Stafford, etc. and all those guys have a superior short and intermediate pass game, with receivers that get good yards after the catch.
I think it's tremendously ironic that Matt Flynn was castigated in the preseason (and in some of his NFL starts) for dinking and dunking, with people calling him "Capt. Checkdown" among other things, when that is how the most successful QBs are operating now. Wilson has become very good with the long ball, but I think our offense would flourish more if he could master the quick slants and checkdowns that would move the chains.
Very quick passes, and "dinking and dunking" or quick hitters are very hard to get a pass rush against, and without a very good secondary, it's hard to stop, really.