thanks for all the help aruturo,
It was weird, i switched back to the old board last night just for fun, it did not work as i expected. Perhaps it has something to do with my parallel port. it only outputs 3.3v on the pins that provide the signals to it. I think that it may be there just was not enough current do drive it. I have two seperate power supplies to run the setup, one 24v for the controllers and a 5v one just to power the BoB. maybe the difference in voltages has an effect. i do not know how the logic detects a "high" status. if it compares the reference 5v to the ports 3.3v to determine if a pin is in a "High" state then it could be the culprit. Any way the problem is solved. I will keep the old board for spare parts, your prices are so reasonable it would cost us both more time and effort then it is worth to return it.
Jen