Dr. Billy,
Forcing the watchdog timer to expire is the only way to programmatically reboot the PXI Controller at this time. If you would like to request a feature that will allow you to do it another way, visit http://www.ni.com/labviewrt and click on LabVIEW Real-Time Wishlist.
Chad H.
Applications Engineering
National Instruments
http://www.ni.com/ask