I also think it's a little too late at that point. They should've left earlier or just follow like sheep until the end. It's perfectly OK for them if you recruit companions with opposite alignments. Perfectly OK with you performing totally evil or good acts. But when you change that's their breaking point?

Sorry not buying it. If you've been totally evil or good the entire game up to that point it should've been totally obvious to them you weren't going to change. So follow along little sheep.