I'm not sure exactly how or where the information is inputted (give it to your clerk and they'll know what to do) but civilian qualifications definately show up on your MPRR. My private pilot license shows up on my MPRR...
It should be noted however that you need to actually HAVE a qualification that is both listed and complete in order for the clerk to be able to enter it onto your MPRR. IE., if you have 3 hours of civi flying time, but no license/ratings that won't be entered.
If you have additional qualifications from civi side its always good to ensure they're listed on your MPRR, and as long as the qual/cert is listed, you should have no problems having it added.