I have Isboxer pass a command to set my "active" character as Jamba master on window swap. Once I do the swap, I will manually hit shift-alt-f to change follow strobing to the new master again. If you like Isboxer can send a command for you to do this automoatically also, but I prefer the manual setup. I am not sure if you have tried doing it this way, but I don't have any problems getting strobing follow to work with jamba and isboxer, so there are ways to do it, its just a matter of working out a way that suits you best.