Download the application, run it, and add the applications you own to the right column. Organize the files how you want (the first 4 or 5, mattering by the choice to the right, decides what is on your dock) and click save. It should spit out a N45AP.plist file. SSH into your iPod using an SFTP (Putty, WinSCP, etc.) client, and save the N45AP.plist file to: /System/Library/CoreServices/SpringBoard.app/N45AP.plist. Make sure you replace your old one. Reboot your iPod, and you're done.