Check out the Kindle hack pages of this forum.
There is a way to get alternate fonts to display...what I can't figure from the instructions for hacking the Kindle is whether or not you can have several fonts in a file displaying (i.e. special title fonts) or if the hack just allows you to adjust the default font.
I create ebook files in many formats and if you begin with a properly formatted epub file, Kindlegen creates a very nice Kindle mobi file which has the code to display fonts that are installed on the viewing device (in kindle for PC, for instance, my mobi files display the proper fonts.) The underlying basis for both mobi and epub files is html which has font css. That means the code is in the file. There's nothing magical about the fonts kindle displays, it's just a default inbuilt to the OS.
The Kindle hack makes you able to change...something...but the example just shows the default font changed. I was hoping someone could tell me how it's supposed to function.