Used a 2003 SWU on a W fare FRA-IAD recently. They didn't bat an eyelid when I gave it to them (I assume they knew the rules had changed for the 2003 SWUs).

I came back to find my electronic SWUs decremented by one for that flight.

Have called the MP 1k desk and they have taken all information. Will see what happens.

Meanwhile, watch your online account every time after you have used a paper cert.