Captain Whitaker asks his co-pilot to switch controls to manual from hydraulics. The screen cuts to show the handle, which is yellow. Whitaker then tries to reach his own but can't. Neither can his co-pilot. He asks Margaret to come do it and in describing the handle Whitaker describes it as a red handle, but when we see it, it's actually a yellow handle.
When Whip asks Nicole where she lives she says "the Georgian Terraces," but her room is in the Georgian Gardens. The Georgian Terrace (singular) is a venerable hotel where actors often stay when they're filming in Atlanta.
When the plane is out of control and flying upside down, the view from the house on the ground shows that the plane is only about 100ft above the ground, however the view from the cockpit window suggests the plane is flying about 2000ft above the ground.
When Whip drives up to his father's house at a farm, he parks his car directly facing the house. He then dumps out all the alcohol and after he takes out the trash bag full of empty cans and bottles, you can see through the door that the car is now nearly facing completely away from the house. The continuity of the previous scene does not suggest that he may have left the house and returned.
The NTSB investigation portrayed in the movie includes recovered data from the Cockpit Voice Recorder. US law requires Cockpit Voice Recorders to include at least 30 minutes of audio data from both pilots and Air Traffic Control radio transmissions. The time taken for the plane to crash less than 30 minutes so the audio from the CVR should have included cockpit discussion about Captain Whitaker sleeping as shown in the movie. This audio would have raised serious questions about Captain Whitaker's behavior (aside from his alcohol and drug usage) but nothing about that is mentioned at any point during the NTSB hearing.
During the NTSB interrogation, the woman refers to the "jackscrew that articulates the horizontal stabilizer, also known as the elevator". This is a factual error. The elevator and the horizontal stabilizer are two different things. The elevator is a movable panel on the horizontal stabilizer which controls pitch and is not controlled by the jackscrew. The horizontal stabilizer adjusts the pitch trim; it is controlled by the jackscrew. In the real accident on which this failure actually occurred, Alaska Airlines flight 261, the entire horizontal stabilizer failed due to a stripped jackscrew and was frozen in a pitch-down angle far beyond its designed operating range, while the elevators remained controllable but ineffective to overcome the extreme trim angle. Thus the animation shown in the film is also erroneous.
Captain Whittaker and Hugh Lang visit the crash site. Lang describes the left wing hitting the ground, subsequent discussion between the two men implies that left wing hit the rear fuselage and drove the left engine nacelle into the fuselage. It's implied that this is what killed the four passengers. However, the view of the crashed plane clearly shows the left engine nacelle intact and attached to the outside of the fuselage.
During the moments just before the crash, the First Officer extinguishes the right engine fire by pulling its "T-handle". A minute or two later, he did the same for the left engine. When the emergency "T-handle" is pulled to extinguish an engine fire, the flames are not only extinguished, but the entire engine is also isolated from the aircraft. Fuel, hydraulics, electrical, and air systems are completely shut off, resulting in a complete shutdown of the engine. Yet during this scene the engines kept operating after the T-handles were pulled, with the Captain even ordering changes in engine power.
We learn after the flight that Margaret has sustained only a broken clavicle from the crash. However, as Whip is being dragged off the plane, we see Margaret sitting on the floor of the plane with her arms raised. This would be impossible to accomplish if she had indeed broken her clavicle.
Mobile phone footage of the plane crash is shown on news programmes throughout the film, but during the actual events of the plane crash there is nobody on the ground (as seen from the cockpit of the plane) in the correct position to have taken it.
While Whip is in his hospital bed, the NTSB agent sets down a recorder. The light on the recorder is "blinking" red, which means it is paused in recording mode. If it were recording, the red light would be "solid". It does turn solid at the end when the agent motions to turn the recorder off -- which is really "record".