Visible crew/equipment: When Austin and Felicity are on Dr Evil's island unpacking the bag in the tent, you can see clear shadows of lighting equipment up the top when viewed from the outside as the men first approach. Some lighting would have been required to light the tent, but they look like film gear and there is an excess of it.
Other mistake: In the scene when Austin is rising out of the pool in the beginning, the water that shoots out of the platform he is standing on is actually going into the water shooter/sprinkler instead of coming out. This is due to reversing the film (so he comes out dry), but hey, it still looks weird.
Continuity mistake: After they defeated Dr.Evil, Austin and Vanessa were married six months later, so the year would have been around mid to late 1997 or early 1998 when they were on there honeymoon. But in the second one, it's 1999 and they are still on their honeymoon. Do you think that they would have had their honeymoon for a year and a half?
Continuity mistake: In the scene where Mini Me shoots Mustafa with the blow-dart he is clearly on the left hand side, yet he hits Mustafa on the right side of his neck.
Other mistake: When Frau shoots the gun out of Austin's hand, she fires from behind his back. She would not be able to do this unless she shot through him. She also would not be able to see his gun from behind him as he was holding it at waist level. One of those new boomerang bullets?
Continuity mistake: At the end of the movie when Felicity Shagwell is with Austin in the 90's, they are in Austin's new pad. Felicity is wearing a multi-coloured top. After she turns on the lights and all the party goers enter, Felicity goes over to Austin. There, she's wearing a white top. How could she have changed so fast?
Factual error: When we have the last montage of jokes about the shape of Dr. Evil's rocket, it is 1969. You can tell from the clothes and the fact that Dr. Evil left in the rocket from the moon base and Austin and Felicity had to go forward in time from the moon base to get back. Now in this montage we see Woody Harrelson (in a cameo) who is apparently an accomplished actor in 1969. One small problem: Harrelson was born on July 23, 1961 and therefore would be around 8 years old.
Factual error: When Austin is photographing his frozen self, you can hear a motordrive on the camera whirring away. However, the camera doesn't have a motordrive attached, and anyway is a Nikon F with Photomic head which doesn't have a socket for a motordrive.
Continuity mistake: Watch the toppings on the cookie Mini-Me eats in the middle of the movie. Before Number 2 starts to tell Dr. Evil that Mini-Me bites, there is only one chocolate chip (or raisin) on the cookie. When Dr. Evil asks Mini-Me if there is anything he'd like to say, the cookie has more chocolate chips (or raisins).
Continuity mistake: In the scene where Felicity and Austin are dancing in the street whilst Burt Bacerack is singing, there is a couple sitting at a table behind them. The shot keeps changing between the couple and Burt and the lady's handbag keeps changing position and angle between shots.
Continuity mistake: Just at the scene where Ivana and Austin are playing chess - just afterwards when Austin asks her if he "makes her feel horny", and she stands up and confesses she was sent by Dr. Evil, but finds him so sexy, etc, in the long shot showing Austin and Ivana as she is saying that, you see Austin has both hands on table, but in the short cuts of Austin close-up, he has one arm over the chair. These shots continue for a little.
Continuity mistake: All of the short dance numbers that separate scenes, even in the beginning of the movie, show Austin with his "bad" teeth - except for one.