Chill out. The movie will be good, or it will suck, and if it Into Darknesses and leaves so many gaping plot holes behind it crashes wookieepedia... that might not be such a bad thing....
Into Darkness has its problems but plot holes (logic, omissions or story elements that directly conflict with what the screenplay has already established) was not one of them.
If it doesn't conflict with the "rules" of what the story has presented, it doesn't count as a plot hole. It's just bad or lazy writing.
Some things are a hole or at least continuity errors: The Dauntless being highly classified, but Admiral Robocop has a model of it sitting on his desk for any visitor to see. Imagine if the Sec of the Air Force had a model of a top secret stealth plane sitting on his desk before the thing had even finished developmental testing...
Other things are serious errors in logic or possibility that conflict with what the screenplay establishes or attempts to establish later: Robocop is supposed to be holding Khan's homies hostage to coerce Khan into playing with Robocops scheme to trigger a war with the Klingons, but Robocop shoves them all into Torpedoes and sends them on the Enterprise to be shot at Kronos... Even if you argue that Robocops plan was to kill off all the Khaninites in a single event (ok, I sorta get that) he sends the Enterprise, with Kirk in command but not in on the plan, to do it, when the preceeding establish that Kirk was relieved of command giving Robocop the option to put someone else in command, and the following events establishing that Robocop has enough people in on his plan to build and crew a massive warship at a secret construction facility that inexplicably doesn't include anyone that could command of the Enterprise earlier that would have been in on the plan and guaranteed to follow through...
It was a good movie, and I enjoyed 90% of it... but by Kahless's beard it's plot didn't make any sense beyond the current scene being viewed.