I usually put the eggs in a small container and apply methylene blue to ward off the fungus, it seems like the best method I've tried.
As for the swimmers, when I transfer them to a fry tank, the tank is full of java moss, a sponge filter squeezing along with a seasoned sponge filter. This mucks up the tank a little bit, but honestly I've had better survival rate by applying a thin layer of sand on the bottom rather than going bare.