Hi Charles,
Seems like a strange issue. I programmed a simple example that uses two lines and configures them independently. It updates both lines in a loop. I adapted it from the example program. Let me know if you have any questions.
Also, since you are writing to different lines on a port, you could write to digital port and ignore the lines you are not using. This would be a more efficient way to program line writing in the same port.
Anyway, hope that helps. Have a good day.
Ron
Applications Engineering
National Instruments