Hello Chris
Warning Main Loop Process duration... means that the "Polling Frequency" set in System tab of the HiCON Config window is too high and the computer is not able to keep up. These messages are harmless as long as your machine is working as expected.
You can lower the polling frequency by 5 and increase the max buffer level by 10 until the warning disappears.
The Actual Tx/Rx frequency of the computer can be viewed in the HiCON Status window.