Continuity mistake: After escaping interrogation Bourne switches SIM cards and throws the phone back down with it facing down. When we see the American awake the phone is now facing upwards. (00:30:10)
Continuity mistake: When Bourne pushes Ward's head to the table and says, "I told you people to leave us alone.", you can see Ward's glasses. Two shots later his glasses suddenly disappear. (01:12:45)
Continuity mistake: The blue Saab convertible belonging to the Berlin-based assassin is parked with all wheels on the road when the call-in team arrives in a silver 4x4. Shortly afterwards, the same car parked almost completely on the sidewalk when the assassin's house explodes. (00:41:50)
Chosen answer: Conklin ordered Bourne to kill the Neskis, telling him it was a training mission, when in fact it was an unofficial, off-the-books assignment to cover up his and Abbott's corrupt dealings with Gretkov, which Neski was about to expose. Nicky did not know about this Berlin mission as it was not an official Treadstone operation.
Sierra1 ★
Conklin did not tell Bourne that it was a training mission. Conklin told Bourne "this is not a drill soldier...this is a live project, you're a go."
Partially correct. After Bourne eliminates the Neskis, Conklin says "Congratulations soldier, training is over." This implies that while the mission was real, Bourne was still an asset in training, and off the books.
By "not a drill" and "live project", Conklin is telling Bourne to actually kill the Neskis - like killing the hooded man for Hirsch, it's training him to do anything for Treadstone. It could be that the edit is out of chronological order, but the order of the scenes implies that after Bourne has done the job and returned to the car, Conklin says "Congratulations, soldier. Training is over."
Sierra1 ★