Interesting thoughts. I just came up with some of my own. They are very rough and don't take pacing or anything like that into account. I just wrote what came to me. Not sure it could ever work.

Battle over Coruscant, Shaak Ti and other extended opening scenes, but remove any mention of Dooku or Palpatine.
Return from battle
Padme tells him she’s pregnant
Anakin is taken in as agent of the Emperor, “eyes and ears of the Republic.” Not appointed to council.
Opportunity to catch Dooku (just a rogue Jedi), not Grievous during opera, and on Mustafar, not Utapau.
Seeds of Rebellion scenes.
Anakin learns that Emperor can help him with Padme, not from birth, but from Dooku (dreams about Dooku killing her, maybe Force lightning from Ep II and Padme screaming)
Anakin swears allegiance to save Padme.
Emperor orders Anakin (not Lord Vader) to take out Separatist leadership on Mustafar
Defeats Dooku, no Palpatine present, no Obi-Wan on Mustafar (change windows to show Mustafar exterior instead of space battle)
Then Anakin takes out Separatists leadership.
Palpatine gives some order to destroy Anakin by hologram to cloaked figure (who really is Anakin).
Obi-Wan talks to Padme so he can help Anakin.
Obi-Wan arrives on Mustafar.
“Anakin Skywalker is no more, my master,” by hologram to cloaked figure.
We see a scorched Anakin on the lava bank and Obi-Wan looking at his body.
He then pilots the ship away, obviously distraught.
Order 66.
Jedi temple is attacked by an armored Vader.
Yoda exile.
Padme gives birth.
Padme survives—Boleyn Girl
One twin goes to Lars homestead.

Make sure Emperor’s face is never damaged.

A few changes would need to be made to the OT to smooth out the wrinkles, as I've mentioned before, specifically removal of the line that Vader was Obi-Wan's pupil and anything related, as well as significant and lengthy flashback during ROTJ to fill in how Obi-Wan fought him, etc.

I really am not saying this is a solution. These are just ideas that perhaps can be fleshed out.