If you going to make a copy of the wrong original (I dont know why you'd want a computer file of something that's wrong, but whatever), you have to uncheck the EF boxes on it or you'll have a duplicate SSN message in EFcenter.

You need to use the actual original file as the amended return, so dont make a copy and use the copy as the amended...save a copy of the wrong original and give it the new name and uncheck the EF boxes on it.