I am having this issue as well. It has happened at least 7-8 times before. This is so annoying especially since you always loose some progress. I am almost about to quit playing the game. This shouldnt happen in an AAA title. Do sth. about it. Now!
1 Month later .... nothing changed on PS4
I've the same Problem since v1.07
After a complete reinstall ... i can't load my old savegames
Not the ones on the console, not the ones from the Cloud.
I've found a workaround on my PS4. Maybe it will also work on Wndows.
Disconect Internet from the console/PC. LAN/WLAN.
Load the last manual savegame.
Wait until Game is loaded.
This issue still exists in the pc version. It's stupid that the game recreates the broken autosave files over and over when it can't load them and the only option is to shut the game off completely, then reload using a manual save from before the period when the saves stop working.
Check out this topic:
Maybe you'll find the answer there.
Were those autosaves you mention generated while you were driving the Nomad? Are you spending a lot of time in the Nomad in general?
My suggestion: create different manual saves at 15 min intervals, whenever possible (do not overwrite the same manual save indefinitely)
Still, an option to disable autosaving may be beneficial on certain platforms. Here's hoping that they add it in a future patch.