Factual error: If the access hatch to the nose wheel well on an airliner was opened at any time during the take off run every alarm panel in the cockpit would light up like a Christmas tree. The pilot would immediately abort take off.
Other mistake: During one of the outtakes between Mr. and Mrs. Potato Head, Mrs. Potato Head packs a set of toy "teeth". In the DVD subtitles for this scene, it's printed as if she said "cheese".
Continuity mistake: In the scene where Woody slips off of Bullseye back in Al's apartment, After Jessie introduces him. Jessie comes along and tickles Woody. The word 'ANDY' is seen on the bottom of Woody's boot, This scene happens after Woody has been restored by the cleaner. In a scene later in the film, we see Woody scrape the paint away to reveal the word 'ANDY'. (01:02:00)
Deliberate mistake: Even though Hamm is flicking through the channels at the same speed, the side with Al's advert on it is visible for longer.
Plot hole: At the end when the gang get home to Andy's room, it's night time and the luggage trolley they drove home in is outside the neighbour's house. The next morning it's still there. But we see an ad with the 'chicken man' looking very sad because he lost Woody and the others. How could he have gone to Tokyo, realised the dolls were missing, then zoomed back to Tri County to do the ad the next day? While saving Woody, the toys explicitly say that Andy is returning home the following morning. They must have made it in one night, or they would have missed Andy's return.
Continuity mistake: Just before the other Buzz activates his anti gravity in the lift shaft, you can see that the lift is nowhere to be seen in the darkness, yet when Buzz and the other toys fall, they only fall a short distance before landing on the lift roof which is now highly illuminating the whole lift shaft. (01:00:00)
Deliberate mistake: The 'Life' magazine with Woody on the cover displays a smaller headline promising pictures of Sputnik, a clever reference to the fact that interest in space travel doomed the "Woody's Roundup" show. The only problem is the magazine's cover date is Jan. 12, 1957, and Sputnik didn't launch until October. Given the Soviet penchant for secrecy (no-one outside Russia knew about it until it launched), it's doubtful any photos of Sputnik of any kind would have been available to the American press nine months prior to the launch. This is a deliberate error on the part of the filmmakers - January 12 is director John Lasseter's birthday. (00:23:25)
Continuity mistake: In the baggage area when Woody fights with Pete, his arm is torn (an injury which had previously rendered it useless). However, in the next scene going to rescue Jessie, he is using the arm freely and there is no sign of a tear or fix. There is then reference (and visible signs) later in the film that the arm has been fixed.
Factual error: Near the end of the film when Jessie and Woody escape the plane, Buzz and Bullseye stand on the runway. In the sky you can see a plane approaching and it passes just above them. A real plane can blow away an entire car when it's behind the engine, yet nothing happens to a bunch of toys.
Continuity mistake: With upgrades in animation the house Andy's family moved to at the end of the first film has undergone some slight changes. The house is still the same general shape, red in color and with the doors and windows in the same place. But the Toy Story 2 version gained an arch above the front door. Also, in the first movie the house was in front of some large pine trees, there was a straight path from the door to the street, and there was a wooden fence in the front yard. In Toy Story 2 the fence is gone, the path from the front door bends toward the driveway, and the pine trees behind the house are replaced by generic types of trees. The house also is much more detailed (as is most of the animation compared to the first movie), allowing the shading of the brick pattern to come in. (00:10:25)
Continuity mistake: At the beginning of the movie, Buster knocks over the Troikas (the toys that fit inside each other), but they vanish a couple of shots later. We can see that they aren't behind Buster when he sniffs the bedroom and heads near the Potato Heads.
Other mistake: In the last scene with the baggage plane, Woody, Buzz, etc. are all near the plane when it takes off. Since they were following a big jet, they are well down the runway once it takes off. Later, without them backtracking the runway, another plane passes overhead very close, as if to land. There is no chance to land a plane if it touches down that far down the runway. You will not be able to stop in time.