The idea is that Windu was behind the Padmw assasination attempts, secretly. While Padme is all about CIS vs Republic, Windu is more Jedi vs the world.
I feel like this concept would work well with the idea of Dooku being a more gray villain, (wild idea here) and maybe the scene from AOTC where Dooku tells Kenobi that a sith has infiltrated the Republic could be altered to reveal Mace Windus dirty secret to Anakin (impossible, I know). In fact, if Kenobi knew and didn’t want to address it with the council, it could provide friction between the two.
This would give Anakin great conflict: is the battle Jedi vs Sith, or Republic vs Sepratists. He had his wife and mentor on one side, and his distrust of the Jedi makes him fight for peace more than anything.
Side note: his dream sequence could be the Jedi killing padme with parallels to how the Tuskens killed Shimi in some way (Same music?).
I have a couple other ideas for this, so if you’re interested let me know.