Continuity mistake: When Sydney is tortured, she loses some teeth and a stream of blood flows out the right side of her mouth. When she returns to SD-6 and speaks with the director, the blood is gone (fair enough). Outside on the street in the following shot, the blood has returned, but there's no reason to believe that she is still bleeding.
Continuity mistake: When Sloane is talking to Sydney towards the end, he slides some documents towards her. After that shot, when the shot's of Syd we can see that Sloane's holding his hands near his face, but in front shots of Sloane they're down by the desk.
Continuity mistake: When Roger Moore is showing Sloane the bank accounts, he says "5 deposits in excess of $45 million...", but the shot just before that shows deposits of (in thousands), $9,362, $7,215, $9,010, $8,300, and $9,250. That makes $43,137,000, which isn't in excess of $45 million.
Continuity mistake: In the parking garage, after Sydney knocks the machine pistol out of the hit man's hands, it lands with the barrel pointing away from the two of them and remains in that position during their entire fight. When Sydney grabs it off the ground, the barrel is pointing toward them.