Originally Posted by Excelsior.
If they do want to restructure specific minutia of Batman's origin (for story purposes and otherwise), I wouldn't want them to simply redo the origin again, but pepper those deviations in the form of flashbacks throughout the next series of films if they can.
They could do something ala The Incredible Hulk
, with a few minute intro sequence chronicling all the major events in his life from his parents being murdered to his training and all the way up to his current status as the Caped Crusader of Gotham.
Then sprinkle flashbacks of his life throughout the film.