Bender,
I believe that your program is not running in multithreading mode. So it gives all resources to the most important operation, which is data acquisition, and then it performs operation such for GPIB instruments. There is a good knowledge base in the web addressing this issue, please check the KB
"If I use multithreading, will my application run faster?" with special attention to the last paragraph. You can also get to that document if you browse through www.ni.com, select Support, and in the search box type: "+multithreading +labview +application +run +faster", this may bring you some good documents that will be of help. To check if y
ou have multithreading turn on please go to your menu Tools >> Options... >> Performance and Disk >> Run with multiple threads.
If you think you may need further assistance you can also get to us by navigating to www.ni.com/ask and view our contact information.
Good luck!
Nestor Sanchez
Applications Engineer
National Instruments
Nestor