Plot hole: How does the little girl Nina know Ferdinand's name if only the animals can communicate with each other? They're all calling him Ferdinand before she "names" him that.
Plot hole: At the start of the movie, a great deal is made of the boom mic that enters the shot. This is ridiculous, because Bolt's view would not be restricted to what was onscreen, he'd have a perfect view of the person holding the boom mic (as evidenced by it not being stable). There's no possibility of him not seeing the person holding the mic either. As Bolt completely and utterly believes the world he lives in, and thinks the situations he finds himself in (saving Penny) are real, someone holding a boom mic would break the illusion for him. In all instances in the movie where an outside force (i.e. a dog handler) interacts with him, Bolt never gets to see the person handling him (handler approaches from behind), the boom mic operator however is literally right in front of him.
Continuity mistake: There's an electrical outlet on the wall below the window (aligned with the window shade's loop) in Sid's room near the Megadork poster, but when Sid throws Woody to the floor and raises the shade (before he scorches Woody's forehead with the magnifying glass), that outlet has vanished.
Continuity mistake: Rumpelstiltskin looks completely different in this movie than he did in the previous film Shrek The Third; Prince Charming momentarily talks to Rumpelstiltskin in the tavern during the third film, and the character looks completely different, has a different voice and different demeanor.
Other mistake: Ginger is adamant that she will not approve any plan of escape that does not get all the chickens on the farm out and to freedom. The problem is, not one of her plans gets anywhere close, and it is not that they fail to liberate the whole farm - they are never planned that way. We see her trying to escape by herself three times. The mannequin of Mrs Tweedy would (had it worked) have allowed nine chickens to escape, the upturned feed tray just seven. Even the 'crate' appears to hold not more than thirty chickens - and there must be several hundred on the farm, at least.
Continuity mistake: During Andy's daydream at the beginning of the film, Mr. Potato Head has an eye patch over his left eye. When the daydream cuts back to reality we see that Andy has removed Mr. Potato Head's left eye to symbolize the eye patch. But when Andy's mum comes in with the video camera, his left eye is suddenly back in. (00:01:15 - 00:05:25)
Continuity mistake: There is a scene where the Chipmunks and Chipettes are singing the song "Girls of Rock and Roll." In that scene, it shows the boys walking up the stairs together and from left to right the order is: Simon, Alvin & Theodore. The shot goes to the girls then back to the guys. The order of the guys has switched: (left to right) Theodore, Alvin & Simon.
Audio problem: (May only apply to the original VHS release.) When Scar has Zazu locked up in a cage, Zazu mentions Mufasa's name and Scar yells at him, "What did you say?" Right before Scar's actual line, whilst Zazu is talking, you hear Scar's "What did you say?" line very faintly in the background, even though Zazu has not even mentioned Mufasa yet.
Other mistake: After the great fire scene there is a raccoon that drags her baby to shore and begins cleaning it. A few seconds later the baby has jumped across to the other side of his father and siblings, but the mother does not stop licking. This error has since been fixed in newer releases.
Continuity mistake: The tiger bites the seat off the suitor's trousers, allowing the viewer to see his polka-heart boxers. When we see the tiger in the courtyard, he has a part of the same boxer shorts in his mouth. So if he bit off the seat of the trousers, shouldn't he have purple cloth in his mouth? (00:11:45)
Continuity mistake: In the 'Gaston' song sequence, near the end, Gaston is sitting in his huge antler chair with Lefou. In the wide shot, there is a bear rug behind the chair. The camera does a close up of Gaston, then in the next wide shot, the chair is on top of the bear rug. Also, after this, Gaston gets up off of the chair and in the next shot, both the chair and the rug disappear completely. (00:29:20)
Factual error: When the fish tank has been cleaned by the newly installed laser fish cleaner, the machine states that the water temperature is '82°.' In Australia the Celsius scale is used; therefore, it should be about '28°.' Australia is 100% metric and has been since 1974! Nobody in Australia - nobody, anywhere, any time since 1974, uses imperial measures. There is absolutely no question of the dentist having an imperial thermometer or expressing himself in° Fahrenheit. It is actually illegal to import or sell any instrument using 'Imperial' scales. You couldn't buy a Fahrenheit thermometer if you tried. (01:14:30)
Other mistake: When Jack first arrives in Christmas Land he doesn't know what is falling from the sky (snow) but he somehow knows that the children are throwing snowballs.