I have spoken to a number of people now and the general consensus seems to be that my transcript should reflect the work iv completed, regardless of if I am given an certified award or not.
I think why I haven't received a straight answer from the faculty is because they probably should have put the work I completed, was marked and passed to the board of examiners to be verified.
As this has not happened, it's probably an unusual situation for them to resolve.
A simple way to sort it would be some kind of headed document outlining the details of what I completed, but this would probably still require some kind of verification.