There's something I don't understand. When do the save files not work exactly? Because I loaded a previous save I had before I talked to the witch and things did change for me.
I sided with the witch first, but I do not trust her at all so I loaded that save and sided with Nameless instead. Everything worked just fine. Do you have to trigger the quest first or something like that?
Talking with Nameless was weird though. I never tried to load a previous save during that conversation and yet he acted like I did and said I didn't want to anwser his question but I never got an option? That took me out of the story a little bit.