The Qio BIOS software is not running and it must run to re-arrange the PCI busses. Because some PC's BIOS's do not allocate space for empty PCI slots, you may need to boot your PC with a card installed in one of the slots in the Qio. You can verify that the Qio BIOS software is loading by checking to see the Sonnet banner in the BIOS startup.
The ethernet ports have been re-assigned new port numbers by Windows and do not have the previous settings. Any ethernet-specific settings must be reset in Adapter Settings. Sonnet is investigating this issue.