Game not saving on PC (Steam)

[Renegrenade]

So I've got a weird issue that just cropped up. I just got in the Steam link and controller and since I'm mid-game on SOMA I decided to give that a shot using my new toys. Everything worked fine and I played for an hour or so. I unlocked an achievement and got the brain icon (loading? autosaving?) frequently. However, when I quit the game (using save and exit) and tried to return later, I saw that none of that progress had been saved and I was back to where I was before playing today.

I figured I had forgot to save or something so I just did a test by running into a new area and trying to save and quit again. Again, it did not save. I then thought maybe theres some issue with using the link device and so I shut that down and played on my PC directly and still could not save. I quit steam completely and restarted as administrator and still could not save.

Like I said, Im unlocking acheivements, my play time is being recorded on Steam, and I'm getting the flashing brain icon... why can I not save all of the sudden?