Scrap Cool Edit (sorry biggharold, no offense) and just download the very functional and very FREE program called Audacity.
As far recording your organ. It depends on how proper you want to do this. I've tossed around the idea of properly micing my leslie for recording purposes, although I've yet to actually look into what all I need to do. When I record me playing though, I just use a mic and place it about a foot away from the Leslie. The mic is plugged into a 6 channel mixer and the mixer is connected to the Line-In port on the sound card of my computer.