When a fish with velvet is removed from subtherapeutic copper, the trophonts on the fish are probably few in number. And it is logical to postulate that these surviving trophonts are not in perfect health, since they were exposed to copper poison just recently (as theronts). It likely takes the parasite a few generations (more or less) to make a full recovery and begin reproducing again in full force.
72 hour transfers do not work on velvet because it can complete it's entire lifecycle in as little as 48 hrs, after dropping off the fish. 48 hrs is the minimum, it can take longer dependent upon strain, temperature, exposure to light, etc. 36 hour transfers (wiggle room) might be effective against velvet, but that is still only theoretical and has never been tested.