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The school should prorate what he had done as a 4th grader

Wait, why should he receive special consideration? I don't agree with that. I would NOT ask for anything special from the teacher at all.

I think this is a challenge to be worked through and that it means your DS has something to rise to, which is great. It's easy for me to say, because I know my DD would not be happy if she got a C--but I also know that we have worked and worked with her on the concept that getting 100% on everything means she isn't learning much or being adequately challenged. (hmm...as I think back on her science grades...uh, never mind) As others have said, this gives him a goal.

This may just be me, but I also would not give him a certificate at home. That would feel like I was sending the message that my child could not handle not getting one.