Thanks, man!
First off, I looked at V2 and I don't see a blue or purple line on the left, at least not during the whole film. Can you post a screenshot? I don't see anything to correct.
Regrettably the pacing and continuity are slightly off in the "ray shields" scene. It's the cost of removing the cartoony R2 antics. We can assume they round up R2 offscreen. It'd be nice for an alternative way to see them get captured.
Palpatine's face melting never amounts to anything in ROTS. He doesn't ever seem to react to the change at all, as if he is not surprised. He tells the Senate it was the result of his assassination attempt, but LOE recasts that as a lie. This way Sidious drops his facade and confidently shows Anakin his true form. LOE's depiction is no more problematic than ROTS, but neither really add up. Admittedly, this change is ideal for edits that either remove Sidious from 1 and 2 or darken his face.
I think Qui-Gon's voice gives Yoda's mention of him to Obi-Wan some context. I can't cut it because I already cut so much of that scene and it needs to have some content to feel right. (The only way to make you believe they discussed Padme is to imply that Yoda's first line is the end of their conversation.) Plus, it gives us our only scrap of an explanation about why no Jedi in the PT disappear (or, why OT Jedi disappear). The Liam Neeson dialogue from Clone Wars with appropriate Star Wars terminology was too good to pass on. I'll check the volume, though.
The Death Star was totally unnecessary in Ep2 and Ep3, and contributes nothing other than a hamfisted way to shove OT imagery into the PT. If it worked itself into the story in a meaningful way, that'd be something different. Removing it also avoids awkward questions about why it took so long, compared to DSII. Episode III shows the prequels very quickly and awkwardly morphing into the OT: The Republic falls in a day, most of the Jedi are wiped out in a few hours, Anakin is dropped into a fully-designed Vader suit, the Emperor metamorphosizes into his wrinkly ROTJ self, etc. By replacing the Death Star with something else, it's one less offense in that regard.