I have the same problem. The Autosave is always set back at the beginning.
Easiest way is to just save the game and manually load it instead of hitting "continue", so it isn't too bad.
QuickSave + QuickLoad work fine within the game session for me.
Early days of a PC launch, save often and save thoroughly. I don't save after every fight because I need to come out perfect... I save so I don't have to do it 26 times because some NPC stubbed his toe on a rock.