I have the desktop dyno 2003 version. I don't put much stock in it but the results I got plugging in my combo seemed pretty right on. I have a mild 408 smallblock with eddy 60779 heads and a comp 275hl cam. The curves it shows seem pretty right on compared to driving the car.
I definitely used the program when I was picking out components, not as a for sure dead on simulation but as a fun way to see how different factors might work together. Here's the graph it spit out for 10.5:1CR headers and 750 holley with my cam and heads:
Maybe the more exotic builds don't compute as well?