Sorry for posting in this old thread, I got here because I had the same problem (https://forums.factorio.com/viewtopic.php?f=47&t=53994). It seems that the more obvious fix is not persisting the achievement state more often, but bringing the achievement counter in line with the ingame counter (which ...

Quick update: After closing the game, steam has updated the number to 13.7M which means at least it is not stuck. However, it is still wrong by roughly 4 M which is pretty much the amount I made since I last loaded the savegame and let it run overnight.

I am in my Mass Production 3 run. I was at 17 mio chips when I accidentally crashed my PC (turned off power). After loading into the latest savegame, I expected the count to be roughly the same, however it had reset to 13 Mio. The screenshot shows that the ingame count is at 17 mio chips, however ...