It really wouldn't surprise me if the CAA issued an ATPL based on previously expired theory credits as long as the IR was valid. Quite often the left hand doesn't talk to the right, and the person processing the paperwork is probably just working down a check list.
ATPL exams passed? ✅️
IR valid within the last 7 years? ✅️
If I were in that situation I would just apply anyway and try my luck. If you start asking questions then it might be elevated to someone with the authority to think!