I find that the USB interface on X7 works fine, but the X8 and X9 USB interfaces do not work. Is there a driver or registry setting I need to use to enable those interfaces?
The connector X8 is a USB 3.0 connector. USB 3.0 is not supported on Apalis T30, so these ports can not be used there.
X9 can be configured with the Jumper J2 either as OTG or Host. On Windows CE based OS there is currently an issue with X9. You find the issue description and the also a workaround on the release roadmap.
More details about the jumper settings and the two connectors you can find in the datasheet of the Ixora board.