Bingowings, you've hit it on the head brilliantly:

"The potential for re-editing and reworking here would be to partly underline and partly make clear these story aspects by trimming away or shifting around aspects which confuse these aspects of the story so instead of being negatives they actually enrich the story."

Exactly.

"Removing Anakin's admission of guilt to Padme turn's his massacre of the Tusken children into a dirty secret he shares with the only person he trusts (the last person he should)."

I also had this same idea a while back...if I were to do my own edit I might even leave out the Anakin killing sandpeople scene ENTIRELY! Crazy huh? :D

"Restructuring TPM so it flows from Coruscant to Naboo cuts out all the wandering about and leaves Amidala with no proof of an invasion to back up her claims.:

Woah! This sounds interesting! Want to elaborate? ;D