Continuity mistake: Cross found out that the picture missing is Charles Lindbergh's (like the blackboard says). He says then "Our Mr. Soneji has a sense of humor." The IT agent by him has her arms folded, hands visible at the elbows. Close-up on Morgan Freeman, and her hands are not on display anymore. (00:35:50)
Continuity mistake: Alex Cross is in front of a computer screen, checking out images of the class to spot the missing picture. From behind, Morgan Freeman is in pose with his finger on his temple, then lowers his hand and turns around. In the next shot, he's still holding his hand high as he is turning. (00:34:50)
Continuity mistake: At the press conference, McArthur is going full "no comment" about pretty much anything. A grim Alex Cross is standing there. Next to him are the senator's wife and the senator. At the cut the senator disappears, leaving just the wife and the FBI agent. (01:11:10)
Character mistake: Cross knows (for some reason) by memory the last words of the Lindbergh kid kidnapper (and killer) and that Soneji/Mercusio referenced in a book he finds in amazingly oblique ways. He calls him "Richard Bruno Hauptmann", while his name was actually Bruno Richard Hauptmann. (00:42:30)
Continuity mistake: Cross begins his running game with the kidnapper. He says "I'm on my way to Sixth and Pennsylvania.", to which Jezzie goes "I'm left and behind ya, Alex." She is from behind using her right hand on the steering wheel, but she has the left on it in the following shot. (01:05:40)
Revealing mistake: At Mercusio's place, Cross is checking out a variety of material the maniac collected on Cross himself. Which include newspaper clippings but they're all the same one, by "Lisa Francescato", same article repeated, just omitting the first short paragraph the second time. (00:39:20)
Continuity mistake: The principal is trying to open the door of Soneji's office, but she can't. She is lowering the hand with the key and turning as she is told to "Stand back", but when Jezzie pulls out of the gun she is still hunched over with her hand on the key in the keyhole. (00:11:20)
Continuity mistake: Cross is talking with Jezzie in her apartment, holding several sheets. The sheets are at the same height in a certain camera angle (when he says "You do what you are", and then "you were born with a gift"), despite the fact that meanwhile he moved those sheets around. (01:12:10)
Continuity mistake: Mercusio gets back to his boat after the embassy fiasco. His shirt is wet in the middle, down to the pockets on his chest, both sides. He grabs his gun and goes to Megan's cell, but his shirt, in the space of few steps, dried considerably up on his right side. (01:01:25)
Continuity mistake: Cross missed the phone call from the payphone at the station. In close-up, Morgan Freeman's hand is on top of the phone, fingertips on the horizontal side. New angle, and now he is leaning with the same arm, but the hand is relaxed, draped over the round corner. (01:07:50)
Plot hole: Devine is in the hideout. It is late evening/night. Nothing in the timeline here makes sense. For starters, the newscast says that "over a week ago" the manhunt for Soneji started. Cross gets on the case the first day, on day 2 they find Mercusio's home, day 3 the failed embassy run and Megan is taken away from Soneji (but nobody knows), day 4 is the jewelry heist, leaving Soneji to be killed the same day or after (the movie messes up on that account but seems to want it to happen the same day, I'd give it another day, making it 5). Moreover, it says that Soneji was killed late in the afternoon the day before; it means that Jezzie waited more than a whole day to go to him, and Devine's comment about the kid being so doped up she didn't realise she is not on the boat makes no sense when it implies she'd have to sleep for 2 days straight instead of one. (01:23:00)
Continuity mistake: After receiving instructions from Mercusio (when Cross is told to go to the Watergate), agent Ollie McArthur says "okay people, let's move." He says that across two shots; in the first, Monica Potter is distinctly shifting her eyes from looking in front of her to looking to her right, but in the second she is looking straight again, making the lack of continuity quite obvious over such a small detail. (01:03:50)
Continuity mistake: Jezzie's computer that she used for all her operations has the screen seemingly turned on, always of a bright blue even before Cross actually switches it on. When he looks at the password screen with just 'Administrator' as username, the screen is black, like it is not in any other part of the scene. (01:27:40)
Plot hole: There is a massive problem in the timeline of the movie, starting when the 'running game' is set. It is dawn when the kidnapper contacts the family and the police. He says, that he will call back in 9 hours, and even says "4 PM sharp." The events unfold, and Cross is on the metro train during rush hour, firing his gun. But at the press conference that follows, agent Ollie McArthur declines to comment on the "incident on the MTA train this morning." (01:03:05 - 01:10:00)
Plot hole: In her plot convenient computer content, Cross finds the address of the house for lease Jezzie has. The house is located in Lovettsville, Virginia. That means it's over one hour away from the apartment in Washington. If we take at face value what happens in the movie, with Cross breaking into the house once Jezzie has killed Devine, then it's impossible he made it in time to catch her and save Megan. One wonders what took Cross so long anyway to get to the house considering he visited the school that tipped him off about Jezzie when students were still around, and why he does not warn the authorities (which is kinda hilarious since what tips Megan off about Jezzie, is that she came alone, exactly what the hero does!). The timer on the computer screen when Cross finds out is 00:00:00, which is a bit unlikely and not much help. (01:29:00)