The information I have from Dr. Becks protocol states that some vitamins and medicinal herbs (i.e. garlic) should not be used prior to using either the pulser or the EU. He states that you should not take either for two weeks prior to using either unit. Also be aware of medication. If you have to take medication take it about an hour after using either unit.
I would say that you might want to stick with this advice until you have more experience with the equipment. Always best to be safe than sorry.