According to page 38 of the R2 User Guide, you can reset the R2 to factory settings by pressing the power button for 15 seconds, until the LED changes to a slow yellow flash - I'd expect that to reset the NMEA output, but I don't have one available to try. Have you tried that method? Be aware that doing a factory reset might clear Bluetooth pairing as well.
(EDIT: Nope, a 15-second reset to defaults won't work. Page 38 of the manual says that NMEA defaults to OFF on all ports in the default settings.)
(Second edit: I found an R2 and tried the Factory Reset (press and hold the power button until you see an orange flash, took about 18 seconds for me.) On my receiver, doing the factory reset DOES reset the R2 so it gives NMEA on Bluetooth 1. So there's a strong possibility that the User Guide is wrong, and a Factory Reset will allow you to use NMEA-based software.
------------------------------
Norman Smart
------------------------------