The new preferences are installed in your Vegas 6 directory; I assume they'll also be in the next update of Contour's driver.
In the meantime, copy the appropriate .pref file (names all begin with 'Sony Vegas 6') from C:\Program Files\Sony\Vegas 6.0 to the subdirectory in C:\Program Files\Contour Shuttle\Settings that matches your controller model.
Likewise, the DVDA settings would be found in the DVDA directory.