My experience with it shows that the program loses accuracy with either strong winds or large changes in elevation. A strong headwind (15+) will cause your shot to come up shorter than what the program estimates, and a large change in elevation either up or down (especially up) will also cause your shot to come up short. It's not a big difference, but it's enough that I always overhit in those situations, especially when short = trouble. I'm using the L33 Cally Slow Meter ball with G20 irons.
As for the putting program, it's basically useless. I don't know what ball he was using, but it's off by at least 15-20% on VF or faster greens.