Colin,
I have attached the example that you need.
Unfortunately, programmatically setting up a RTSI cable between devices is not supported. Perhaps you could file a product suggestion.
I will see if I can find any information on the behavior you are seeing with the pulse generation. That ceratinly isn't expected. Are you sure that there are no glitches on your trigger? As for setting the initial delay while running (I'm assuming that that is what you want to do), I will double-check, but I am fairly certain that that is not supported.
Hope this helps,
Ryan
Ryan Verret
Product Marketing Engineer
Signal Generators
National Instruments