They actually don't seem to care. If you have a CPL(H) and IR(H) then you're good to go. It's bums on seats.
Do the IR theory exams, 7 of them, and this automatically gives you the ATPL theory credit. Although i'm not sure if you could do the exams after finishing your flying course part of the IR and still use them towards the ATPL upgrade but personally I can't see why not.