Nightrider -
No. If you condition the make-up air to the hood, you eliminate the purpose of having the make-up air system. The purpose of the auxiliary make-up hood is so fume hoods throughout the building don't exhaust excessive quantities of conditioned building air. This is an energy savings item. The unconditioned make-up air washes down the face of the hood and is removed (preferably with laminar characteristics) in lieu of conditioned room air. As a side note, typically hood performance deteriorates if auxiliary flow exceeds 70 percent of the volume exhausted.
If you experience condensation on the auxiliary air duct, or hood, start by insulating the duct and hood assembly. I think condensation might also be less of a problem with the system operating at steady state than if the system continually starts and stops during a workday. I would look into the controls of the system also.
Good luck, -CB