Will they ever get the timeline straight? (Spoilers)

I mean, it should probably already be clear the writers have no interest in consistent or logical time travel rules, but seriously, where are we now with Thawne??
It's such a cluster now; he's erased from history, but there are remnants of him in periods where time needs him to exist, then Barry creates Flashpoint, pulling Thawne out of time before he becomes Wells, reverts history and Thawne appears to go on his merry way without any indication of him taking his proper place in history by taking on Wells identity. By all accounts this same iteration of Eobard then recruits Malcolm and Darhk to take on the "legends", only to get eaten or whatever by Black Flash/Hunter Zolomon; with nary a mention of what that means for the history depicted in season 1.
Now he shows up again, wearing Wells face (which thinking about it in those terms does add an interestingly creepy serial killer type element to him. It also makes me wonder if this was simply a creative decision to have a bad version of "Wells" in the crossover to mirror the dopplegangers, without doubling Barry, or if the actor who plays Eobard otherwise was unavailable?). This Wells is apparently from the end of season 1, and supposedly did not die/get erased from existence, which in itself is a convoluted idea, but then he also ends up on Nazis World, and takes up Wells appearance again. Plus he's not at all concerned about the Black Flash or time wraiths, like he was last season, which was proven justified in the conclusion of last year's Legends arc.
And on top of all that, I can't reconcile the Thawne who leaves Barry the video message, bequeathing him Star Labs, and confesses to killing Nora Allen, with his return to form, trying to help take Kara's heart. I mean, that part always seemed incongruent with the character anyways, and also wrote the show into a corner with subsequent versions of Harrison Wells lol living on this Earth and being on the team - but it still happened....