If you purchased your Qio before November 2011, you will need to update internal Qio ROMs to allow Windows to enable hot plug. This updater needs to be run from a Macintosh.
There is a very limited resource in PCI I/O space in PCs. There is not enough I/O space for the Compact Flash drivers to start. Often this can be fixed by moving the Qio PCIe expander to a different slot.