I really loved this movie. I got to see it at a sneak peak last week and I am going back to see it again on Friday.
As to the Farragut in the original timeline Kirk is cleared after his little KM test and gets assigned tot the Farragut. In the new timeline he is before the Academy brass on charges but his ruling is put on hold because of the attack on Vulcan. So he doesnt get assigned to the Farragut and McCoy gets him on the Enterprise.