Starting this to avoid cluttering the review thread. If you've seen the movie and have questions, here's the place for them. Some will have answers, some will have our best guesses.
It's actually triplets. The third brother worked for President Palmer and President Logan. If you want an answer that's more logical and in universe, well we never saw Col Sharp die did we. There was just the "no survivors" line if I recall correctly. Well they were wrong. After cutting the hardline to stop Blackout downloading the data, the Col and perhaps some others, made it to a emergency bunker but they were trapped by debris. They weren't found until several days later (after the no survivors line which was only a few hours later). Because he had experienced a close encounter with the robots he was put in charge of being an army liasion with NEST but as NEST was secret his identity was changed so there was no official paperwork with his name on it connecting the alien attack on the airbase and the secret working-with-aliens taskforce.
I'd like to know if that imploding scene was meant to show Cybertron being destroyed by the closing spacebridge. Sure looked that way to me, compared to the phasing out the first time the transfer was interrupted.
In Washington a Decepticon scanned a green dump truck. Later in Chicago we saw a large green transformer with long arms. Was that the same 'con?
Were Wheelie or Brains seen after the ship crashed. They said "we're gonna die" as it was going down but I don't recall seeing them after that.