Continuity mistake: While on the compound, there is a scene where some army guys are driving at Matrix in a jeep. They drive past some random army supplies and are about to surprise Matrix when he turns around and nails them with his rocket launcher. Or he sort of nails them. Actually, the army supplies that they had just passed have suddenly relocated and are crashed into by their jeep. Rewind and play repeatedly for full humour effect. (01:12:12)
Revealing mistake: Just before the guard in his tower gets killed and falls out, you can see the wooden sides have been precut. When he supposedly falls through the wood it parts along the cut line but remains hanging on string. (01:10:48)
Continuity mistake: During the attack on El Presidentes house Matrix is seen using the belt fed machine gun. One shot shows him firing it apparently left handed (the film has been flipped as mentioned before) with a strap diagonally across his chest. The shots immediately before and after this he does not have the strap. A couple of shots later he is seen picking up a gun with a strap and putting it over his head. The next shot is the same one as previous but flipped back to its correct way. (01:15:33)
Factual error: If the access hatch to the nose wheel well on an airliner was opened at any time during the flight, every alarm panel in the cockpit would light up like a Christmas tree. In this case happening within seconds of takeoff the pilot would immediately declare an emergency, turn around and land at the airport he had just left.
Audio problem: When the soldiers surround the shack and finish firing at it,you can hear a shotgun blast last while nobody shot. (01:11:25)
Continuity mistake: When Matrix first abducts Cindy and is talking to her in the car, both of their windows are rolled up. When she backs the car out, the passenger side window is rolled down. In the next shot, as they exit the parking garage and pay the attendant, both windows are rolled down. (00:29:50)
Factual error: As noted elsewhere, it is simply not credible that Cindy, a trainee pilot, could land an seaplane so neatly, but it should also be pointed out that she banks into a low level formation on three helicopters - a very tricky manouevre, and then immediately after take off banks tightly into a high speed flyover of the squad on the beach. Both of these stunts would demand a very high level of skill from a pilot, especially one flying a lumbering old seaplane. (01:05:10 - 01:24:45)