The position of Samantha's legs keep changing when she lies dead in her apartment.
The two planes would not have been able to crash regardless of being given fake air traffic control instructions that would cause them to do so. The aircraft would have been fitted with a device called TCAS (Traffic Collision Avoidance System) which would have alerted the pilots of the impending collision and advised them to take evasive action.
When Tony Almeida meets to hand over Mutobo, Jack uses a sniper rifle to cover him. After the first shot, he cocks the rifle back, like a bolt-action rifle would be. He then takes two uninterrupted shots without cocking the rifle back, an action that would be impossible with a bolt-action rifle.
While Jack is sniping Nichols henchmen, the rifle he is using is the Chey-Tac M200 Intervention. In the quick firing of the 2 rounds, which is impossible in its own as the M200 is a Bolt-action rifle. At that short of a distance either the .408 or the .375 Caliber rounds would have ricocheted off the solid concrete floor at the combatants feet, inflicting serious wounds, in short, he would not still be standing there, let alone walked away back to the SUV.
Renee would've sustained serious to permanent hearing loss and damage when Jack fired the gun next to her head yet she hears perfectly normal.