I am running WP 3.0.4 and updated the plug-in on both my MAMP installation and my remote installation. Neither of them worked. I used to see a menu item in the admin area where I could re-order my different post types but those menu items no longer exist when working in my admin section.
HOWEVER any post type that I previously ordered with version 1.3.8 of this plug-in stayed in the order I selected. But with the updated I simply no longer had the ability to re-order anything. I uninstalled the update and put v.1.3.8 back and it works normally now.
This is a great plug-in but something is wrong with this update.