Software Token registration isn't up yet on the SE Account Management end. It will be available after Maintenance.
Square Enix Account Management System Maintenance (Mar. 28)
Mar. 28, 2013 from 10:00 to 11:00 (PDT)
http://www.playonline.com/ff11us/pol...ews21951.shtml
Switching from Physical Token to Software Token
http://support.na.square-enix.com/fa...6693&id=496&la
Setting up the Software Token
http://support.na.square-enix.com/fa...6681&id=496&la
