1997 Civic HX, 5MT, stock, 320k miles

I was trying to clean the egr passages last night and one of the two fuel rail nuts that is stud mounted kept spinning but wouldn't come off. I ended up wrenching out the stud so I could move the fuel rail into a position that I could clean the EGR stuff. I have not been able to remove the nut from the stud.
I don't want to destroy the stud, any suggestions on getting this thing off without destroying the stud and rail ?