For what its worth, I think that scene was removed with the thought that it would be more dramatically interesting if Qui-Gon and Obi-Wan didn’t get to resolve their differences before Qui-Gon’s life is taken unexpectedly. It gives Obi-Wan more emotional baggage that he takes into training Anakin. This is a change that I think goes all the way back to the original Phantom Edit.
Got it. It sounds like one of those changes that appears to be good at first when all the fans get together and discuss it, but later seems kind of redundant (especially when nobody even remembers why it was changed). All of us have seen the movie enough times to fill in the blanks, so the scene where Qui-Gon is killed will have no more or less gravity with or without this scene. In the end, it just kind of leaves a gap with an awkward scene transition.