Okay so my saves are disappearing. Sometimes I'll make a save, or especially a quicksave, and then when I log back in to the game its just gone. Sometimes though if I reboot its there, but most of the time, even if I go into my saves folder on my computer, there is nothing there. I've made sure I didn't have any security things blocking it, and theres nothing that I can see that would make it do this.

Go into Steam. What happens when you disable the Steam cloud for Fallout 4?

GOto steam library right click FO4 and select properties. Update tab and uncheck enable steam cloud at the bottom.

Also either temp disable anti-virus or add Fallout4.exe and the launcher exe to the exceptions list.