Two things that ran through both some of the positive and negative reviews was that the plot was very thin and there was a feeling there was something emotionally lacking. A lot was going on, and it seemed some of it was left hanging or didn't get the attention it deserved. The bow tied around this one at the end didn't exactly wrap things up as neatly as it could've, I guess. Was it a story meant to be taken seriously spiked with some humor, or a humorous light romp with some dark moments added for gravitas?
As I said, a lot was going on. Kirk was bored, he still felt like he was in his dad's shadow, Spock Prime died, Spock is feeling pulls to return home, the villain is essentially a vet with bad PTSD that went neglected (I don't mean that in a light or flippant manner -- Edison should be a sympathetic character), the Enterprise was destroyed, and there were so many Trek references that I wonder how in the world Orci's turned down script could've been criticized as "too Trekky." Perhaps the story was trying to play on too many feelings and levels. As it was: You'll laugh. You'll cry. You'll believe a one hundred year-old starship can fly.