Thinking more on the stuff I would change were I to do my own PT, I'd have the split between Anakin and the Jedi Order be far more severe. I also might not even have Padme marry him. He might be a mistake she makes during a stressful period where she thought she was close to death, then she comes to realize what a clingy stalker her is. But with the Order, I would have had them figure out either Anakin was married (if you keep that bit) or that Padme was pregnant with his kids. And he'd probably suspect Obi-Wan of telling the council, but it was likely Palpatine all along. They boot him out, and Palpatine embraces him, having Anakin as his personal bodyguard and confidante. When Anakin figures out Palpatine is really a Sith and reports it to Windu, their doubt in him is more justified, and his doubt in the order is as well. The turn won't seem quite so abrupt. Finally, I would also have his suspicion of Obi-Wan and Padme run even deeper and start earlier.
I dunno... Star Wars is full of so much 'could have been's for me, that it's fun to think about this stuff, even though I'm actually more or less happy with what George did.
Not to be snide, but I honestly think the easiest thing to change and not have to overthink it is just make Anakin not a complete fucking loser. There's two things that made the Anakin/Padme relationship unbelievable to almost everyone I've ever had this conversation with.
1.) Padme basically knowing Anakin since -she- was practically an adult and -he- was pre-pubescent was deeply uncomfortable AND makes her falling for him a lot less reasonable to most people.
2.) Anakin was a piece of shit with zero charisma, interpersonal skills, or virtually any qualities that would make a woman want to have sex with him beyond 'maybe good looking depending on your tastes, and powerful Jedi.' We're, I imagine, not supposed to get the impression that these are the specific criteria that Padme looks for in a man.
Everything spirals from there. Even 'I killed the children' and Padme, apparently, being like 'aaaah, it's okay.' There's no sensible explanation for letting that go beyond 'she loves him' and 'she loves him' is entirely predicated on him having love-worthy qualities that we have NEVER seen.
It's hard to fix any singular problem or set of problems in the PT, because all of the problems are interlinked. For example; in order to encounter the 'I murder babies' problem with the Tuskans, we need to create the problem of civilized, ostensibly 'good' Jedi choosing not only to ignore slavery on not-Arrakis, but to specifically ignore the fact that their own Jedi apprentice's MOM is a slave and he's extremely aware of it. AND you have to create the problem that Anakin himself never did anything about it either. Like, it's just this compounding problem of every single person involved being a lunatic.
I remember watching the PT with my ex, and right after we saw RotS together, the first thing I said to her walking out was: "That's an entire trilogy about how Star Wars doesn't have a single reasonable adult in it. The only way Anakin turns to Darth Vader is because George Lucas and every single character in the franchise WANTS him to." I stand by that to this day.
Anyway, back to my point; you can fix a lot of the clunky relationship stuff by A) not having Padme and Anakin meet while Anakin is a literal small child, and B) having Anakin actually be kind, charming, attentive, and loyal to Padme in ways that do not read as incredibly creepy, self-serving, and possessive. Boom. Done. Fixed.
I don't even think the Obi-Wan/Padme connection is necessary. Scratch that.. I actively hate the implication. It's trite.
Padme should simply grow increasingly concerned with Anakin's frustrations with the Jedi Order's inaction or inability to reform the system. He should get angrier and say more -lightly- unhinged things ("the galaxy just needs a strong leader!"). We should lead up to him murdering someone and confessing it to Padme (Tuskans or whomever you want - probably still connected with his mom). But in this version, Padme should turn him in to Obi-Wan; someone who is clearly a best friend and confident to both Anakin and Padme.
But, of course, Obi-Wan cannot just offer quiet counsel and let it slide that Anakin has murdered people in rage. That IS the Dark Side. He needs to arrest Anakin. And when he comes for him, Anakin feels betrayed by Padme and that completes his turn - now knowing that even his wife and his best friend won't stand up for him and won't help him make the galaxy great again, and all that.
Bonus, you can work in that the reason Leia has -some- memories of her mother is because she didn't die of 'I so sad.' Anakin actively hunts for her after his turn, and eventually is successful in having her transport ship destroyed (or whatever). Leia survives with limited memories of her sad mother.
Or, I mean, the mother she remembers could just be Breha Organa. Not sure why that doesn't seem to jive with people even now.
Every time I think of something I don't like about SW - this is what I end up doing. Just way too many words ruminating on how it could have been done. You'd think I'd get over it by now.