Corrected entry: In the scene at the Military Academy, just after Lance Henriksen has introduced himself to the boys, you will see a platoon of boys about to march off. You will see the guy holding the baton about to move off. As he twirls the baton, you can see the top of the baton fall off to the ground.
Corrected entry: There is a strange sequence that I'm not sure is a plot or continuity flaw: The doctor calls Mr. Thorn to setup a meeting about Damien's blood test. The doctor is then cut in half in the hospital elevator. They immediately cut to Mr. Thorn opening the newspaper and is shocked at the top news story. How fast is the press? Thorn reacts like he just found out. Surely the medical staff would have notified him of what happened. There is no other indication of how much time has passed.
Corrected entry: In the first movie, Robert Thorn asks Bugenhagen for proof that Damien is the Antichrist and Bugenhagen tells him to look for the birthmark on Damien's scalp. But why didn't Bugenhagen simply take Thorn to see Yigael's Wall, since this movie establishes that it bears Damien's face and is the final thing that convinced him?
Corrected entry: At the start of the film, Karl Bugenhagen wants his archeologist friend Michael to deliver a package which contains the daggers to Damein's uncle in Chicago. This is impossible, since Bugenhagen already gave the daggers to Damein's father, who was then fatally shot at the end of the first film. So how was he able to get them back?