I was playing the very end of Episode 4, but Steam couldn't reach the server, so I was playing offline. I played through to the end of the episode, including the credits, but then I decided I wanted to see an alternate ending. I copied my current saved game and then played that copy, rewinding to the last chapter of Episode 4. Oddly, at this point, the chapter name and image were incorrect (it looked like it was the chapter "Battery"), but when it loaded, the chapter was correct ("Penultimate"). Also, when the saved game started, it picked up from the last auto-save point in that chapter, instead of at the beginning of the chapter.
Anyway, I played through the last chapter again, saw the alternate ending and liked it more, so after the end credits I went to continue playing from that new game for Episode 5, but the "previously on" section showed my choices from the other (original) saved game. I tried deleting, re-copying, rewinding, and replaying the last chapter a few times, but every time in the recap I got the version I played that very first time.
I quit the game, and restarted Steam. At this point, Steam (now apparently able to connect to the server) prompted me with the information that the cloud version of the game was different from the local version. I should have reverted to the older version, which included my original saved game at the point of almost completing Episode 4, but instead I uploaded the new version to the cloud. Now, no matter how I play through the end of Episode 4, I end up with a scenario based on the first time I did so.
I have read through the solutions for similar problems, but the problem usually seems to lie with the pref files, and I can't seem to even find mine. Please let me know if there is anything I can do about this issue, as it is very frustrating! Is there any way I can just go back to the old version of the files on the Steam cloud?