The shape and size of the bandage (and the blood thereon) above Dr. Parker's right eye while he's in the truck stop restroom talking to Parker and Longbaugh.
Ending scene orientation of Longbaugh's gun. As he and his partner lie on the ground, the gun above his head points to/away from his partner in sequential shots.
The blood on Dr. Painter's face as Mr. Chidduck holds him to the wall.
In the sperm bank, when Parker and Longbaugh get up from the chairs they put down the magazine the other was reading. Most noticeable if you watch who has the copy of "Perfect 10".
The first card in the game of hearts said to be placed is two of clubs, but in the long shot it is seen to be a high number heart (10?). All following shots show the correct cards.
At the beginning of the movie, Parker and Longbaugh are seen at a sperm bank looking to make some quick cash for the road. Sperm banks have stringent requirements for medical history for both the donor and family.
When Longabaugh shoots the first Federale with the sniper rifle, the sonic crack of the bullet is heard, and the impact is seen, before the report of the rifle is audible, indicating a range of over 700 yards, far beyond the range of Jeffers' pistol. Yet Jeffers is able to put down effectively accurate suppressive fire at that range.
When Mr. Parker dives into the fountain and gets impaled by glass in the forearm, there's clearly a prosthetic piece around it, as the forearm is much thicker than the other one.
At the film's ending, after the shoot out at the motel, Parker and Longbaugh wonder why the doctor, followed by Abner, went south. The sun is rising behind the cars, to the drivers' right, which would mean that they are heading north, as the sun rises in the east.