There's no crime in a local resistance to foriegn forces, any of us would do the same.
Didn't a similar thing happen after WW2? Not every German soldier was a war criminal. There does need to be some sort of program to get those on the margin back in to the fold. It's going to be a messy process and not many people will be in full agreement but I think all successful post war transitions have some component of this type of thing.
I was dead set against any type of amnesty until I started to look into previous wars. Now I'm more flexible on this subjet. All Al Queada members should be treated as the SS were in WW2.