Revealing mistake: When Amidala and Anakin are eating and he cuts her a piece of the fruit and "floats" it back to her, the bite appears in the fruit a split second before she actually eats it. [This appears to be fixed in rereleased versions]. (00:53:40)
Plot hole: When Amidala and some of the clone troopers get blown out of the ship chasing Dooku, later the trooper approaches Amidala and asks about making their way back to the front lines, but Amidala says they should go to the hangar to help Obi-Wan and Anakin. How did she know about the hangar, having left the ship quite some time before it arrived at the final destination? (02:05:50)
Other mistake: How is it that one slash on Amidala's back ripped off the entire midriff of her shirt, and a sleeve? (01:47:00)
Audio problem: The aliens that populate the planet of Geonosis have an extremely peculiar method of speech - consisting of clicks and weird ringing sounds. However, despite the fact that they make up 99.9% of the crowd in the arena, the sound of the crowd cheering is human. (01:44:10)
Continuity mistake: When Padmé gets her back scratched by the nexu, she seems to bleed. Even though she is wearing all white, and the scratches seems to be deep, her white top remains squeaky clean during the rest of the movie and does not get dirty from her wound. The wound itself also vanishes, not reappearing for the rest of the Geonosis sequence, even when she falls out of a gunship and goes rolling in the sand. (01:47:35)
Continuity mistake: During the sequence where Obi-wan goes to meet Yoda regarding the absence of Kamino from the Jedi Archives, look closely at the collection of children Yoda is training. While most are human, there is one that is alien, with a reptilian face of dark skin. He sure moves fast, because at first he is at the back in the centre of the group of trainees, in the next shot he is at the front of the group of trainees, and by the end of the scene, he is on the far left, yet we never see him, or any of the other children, move. (00:36:25)
Audio problem: When Anakin and Padme are talking after their meal together. When the camera is facing Anakin at one point he says "Believe me I wish that I could just wish away these feelings I have for you!" and then stops talking. When the camera switches to face Padme, if you watch closely, Anakin's mouth is still moving even though he isn't saying anything.
Continuity mistake: In the arena scene, Anakin's pillar already has a chain hanging from the top before he is led to it, however, when he is led to the pillar, the chain is no longer there, and a new one is hoisted to the top by the flying Geonosian guard. (01:44:50)
Continuity mistake: Right after Zam's speeder crashes near the bar and Anakin is chasing her through a crowd it shows a shot of him running really fast through the crowd. Then it cuts to her and back to him. When it cuts back to Anakin it is the exact same shot as the previous one. (You can tell because he passes a bright yellow light and then he puts his left hand on someone's shoulder as he passes them. All this repeats on the second shot.) (00:20:10)
Continuity mistake: During the scene when Obi-Wan attempts to capture Jango Fett as he departs Kamino, Fett and his son Boba can be seen about to load crates onto his ship. As soon as Boba warns Jango about Obi-Wan's presence, Jango tells Boba to get in the ship, the scene switches view, the fight between Jango and Obi-Wan starts and where did the crates go? (00:58:15)
Continuity mistake: When Anakin and Padme are about to eat, Anakin uses the force to levitate her pear-like fruit to his plate. He then proceeds to cut it pretty much in half. However, the piece he sends over to her is much smaller than half - we even see the remainder of the pear on his plate which is substantially larger than it was in the shot before. (00:53:25)
Continuity mistake: When Anakin and Padme are standing outside the Lars' house, we see their shadows projected on to the side of the house (with Anakin's shadow looking worryingly like Darth Vader's). However, in the next shot their shadows have moved about 4 feet to the left, and the shadows on the ground also change size and intensity between shots several times. (01:14:00)
Continuity mistake: When Palpatine is speaking to the Jedi very near the beginning, the ships in the suspended invisible freeways on the background are always going on the same pattern. Notice that there is an elongated ship with a large rear tip, and then two smaller ships always seem to catch it at the same time. This goes on for about 3 minutes. (00:04:15)
Revealing mistake: When Anakin and Padme's shuttle arrives at Naboo it flies over a lake and lands on the other side next to some trees. Even though the trees are visibly reflected in the lake, at no time is the shuttle ever reflected on the lake when it passes over it and lands by the trees. Bizarrely though, its shadow is always visible. (00:38:35)
Continuity mistake: During the battle of Geonosis, Ki-Adi-Mundi has a blue lightsaber. After the clone army arrives, there is a shot of Obi-Wan and Mace, then Anakin, then Padme. During that shot of Padme, over her right shoulder, Ki-Adi can be seen with a green lightsaber. It then changes back to blue when he is on the transport ship deflecting laser shots. (01:56:50)
Continuity mistake: When Ani purposely jumps out of the speeder to catch Zam, in the same shot he does this, Obi-wan switches to the driver seat and you can see he has blue jeans on. All other shots show him wearing tannish pants.