Continuity mistake: When the three super villains attack the astronauts on the moon, as Non lifts the lander's leg, there is a shot of the astronaut inside a collapsing cabin. It is like there is something crushing the roof inwards, but all three super villains are accounted for, with Zod sat in the moon buggy, Ursula standing next to him and Non lifting the lander. This happens twice in the space of a few seconds before Non jumps on top of the lander to crush it. (00:27:25)
Deliberate mistake: The kid who falls into Niagara Falls spends 28 seconds falling before Superman catches him. Niagara Falls is 51 meters in total height. Considering how fast something falls, the kid should have hit the water long before Superman ever entered the scene. (00:39:30 - 00:40:00)
Continuity mistake: Right after Clark reveals himself to Lois in Niagara Falls hotel room, by his hand falling into the fire, he backs up to where the bed and lava lamp like column is behind him. In that shot, there isn't much of the "lava" in the column. The scene cuts to a shot of Lois and then back to Clark and suddenly there is a lot of "lava" in the column. (00:53:05)
Revealing mistake: In the first confrontation between Superman and the Zod Squad, Superman gets chased out over the water. In the first two shots in this chase, if you look at the bottom right-hand corner of the screen (at least in the letterboxed version) you can see the wake of the boat that they used to make these two pull-back shots. (01:34:40)
Visible crew/equipment: Ursa throws the sewer lid at Superman sending him flying backwards into the car windshield. Watch the sewer lid carefully when Superman actually hits the windshield. You can see that the sewer lid was actually attached to a belt around his waist so that it would stay in place for the shots where he is flying backward through the air. (01:39:50)
Visible crew/equipment: In the town in Idaho when General Zod and his crew first visit, watch when the boy's father (elevated by Zod's finger) falls to the ground. You can see the pad under the dirt when he hits it.
Revealing mistake: When Zod lifts the boy's father with the beam of white energy, watch closely when he raises him up past the telephone pole...he 'clips' right through it, or rather the pole clips through him, as if he is transparent.
Factual error: After Superman accidentally frees the phantom zone villains with the exploding hydrogen bomb, they start flying towards the moon. The sleeves in their clothes can be seen fluttering around. This would be impossible because there is no air in outer space, hence nothing to cause resistance against the clothes.
Other mistake: When Clark and Lois are on their way to the diner, the wide shot of their car driving along looked very familiar. In fact, it was footage used in the first movie, where the car was used as part of Lex Luthor's "real-estate" plan and was run on remote control. If you look closely in part II, no one is driving the car yet you hear Clark say to Lois, "Hey, you seem pretty quiet over there...."
Continuity mistake: There are two external White House shots in the film. The second is a still shot, and should take place at least a few days after the first. However, it is a frame from the earlier shot, with the same person standing in the same spot on the lawn.
Visible crew/equipment: In the shot where Zod walks on the lake's water, there is a platform visible just under the water's surface.