Ok, I see what you're saying. Just as long as Qui-Gon's not there by the time of "the big duel," because that's something that's been talked about ever since the early 80's or whenever it was first brought up. Your alternate storyline for Qui-Gon could've worked just as well as, if not better than, what we got in TPM. I think what we got instead was Anakin killing Mace with Palpatine's help.

Your alternate storyline seems motivated out of a desire for a family dynamic that continues throughout the entire PT, similar to Leia, Luke and Han in the OT. As it is, Obi-Wan and Anakin are barely acquainted by the end of TPM, and just in time to get a different actor to play Anakin in AOTC. I do see where this is coming from, though. Like you said, it would've been nice to see more Jedi like him.