Heh. We are such geeks. My first thoughts upon reading the post were... how does Mathematica compare to Matlab? Which packages are you using to generate your transforms?

And why the hell aren't the Mathematica libraries written with speed in mind? I know Matlab is continually looking for ways to make theirs perform faster and would assume the same holds for Mathematica. Maybe you haven't found the best functions to call yet and are doing too much work?