Regarding Anakin hearing Qui-Gon during the climax, I’m pretty sure there has been an edit that had Anakin hear Qui-Gon’s line, “Your focus determines your reality”, which fits with the moment pretty well I think. It also can be interpreted as Anakin just thinking of what Qui-Gon said, rather than Qui-Gon literally communing with him. But that could confuse people, and this ANH parallel might be a little too on the nose. Maybe not though. Maybe you could actually cut back to the moment to make it clear that Anakin is just recalling what Qui-Gon said rather than Qui-Gon speaking to him through the Force.

Regarding the Gungan Battle, I don’t think the entire battle scenes have to be put back to back. I think the Gungan battle should at least end before the gang splits up in the hangar. That way there is never four plots going at once. I think it would still be good to cut back to the gang making their way into the city to show what the Gungan battle is accomplishing.

Also, is the shot of Jar Jar landing on his arse (lol) even necessary? I mean I guess if you’re wanting to keep up runtime. I’ve seen other edits that just show Jar Jar and Captain Tarpals surrounded (but cutting away before Jar Jar surrenders).

Huh, after twenty years of TPM edits this is probably the first time anyone has ever managed to give Jar Jar new lines like that! Pretty cool.