Continuity mistake: In the third segment of the movie we see Davis, Yolei, Cody and their Digimon playing on the beach. In the wide shot when we see all of them playing we see that Davi's Digimon is in his "rookie" form, Veemon. When they show a closeup of him and Davis together, Veemon is now in his "in training" form DemiVeemon. Then they show them all playing again and he is now Veemon again.
Continuity mistake: When Kronk is disposing of the llama body, he runs down a very tall staircase. At the bottom, he runs into two peasants and leans up against the wall. The peasants pass him, walking toward the left side of the screen. Immediately after they disappear from the screen, the "camera" zooms out so you can see the entire palace. Now, the only place the peasants could have gone was up the staircase Kronk had just come down from, unless they wanted to fall off a cliff. If you look on the stairs, though, no one is there. The peasants couldn't have made it all the way up the extremely tall and steep staircase within seconds, so they just mysteriously disappeared.
Continuity mistake: When Mrs. Tweedy gets the idea of converting her farm when reading the brochure called "Sick and tired of making minuscule profits," a wedding picture of the husband and wife is seen on a cupboard at the back. Then, in the next shot, as Mrs. Tweedy slams her hand on her desk that same picture suddenly happens to be on the desk.
Continuity mistake: During the scene where Akima gets out of the shower, we see Cale going over some of the stuff she collected that's sitting on her table. On it there is a baseball and a picture frame that's lying flat on the table. Cale picks up the baseball, says something to Akima and puts the baseball back down on the table, where it rolls over the picture frame as if it was flat as the table.
Continuity mistake: In the scene when the FBI agent is in the TV tower early on in the film, you see her put the FBI Identification card thing back into her 'mobile phone holder' in her bag. Then you see the guards charging up the stairs. Then the shot goes back to the FBI agent. She hasn't put her ID card thing inside her bag yet, she is still holding it.
Continuity mistake: When Bruce plays the clip of the Joker appearing at the rooftop party, the audio clip that plays with it is not the same as when the Joker actually said it during the attack. The clip seems a bit more subdued than the actual voice track.
Continuity mistake: When Aladar is trying to help Eema get up, his eyes turn blue in one shot and in the next, they turn back to the usual green. The same thing happens at the end of the movie, when Aladar's baby hatches out of the egg.