Well, I've got nothing except to open up Device Manager, plug your Kobo in and see if an error pops up in the device tree. Even if one doesn't, I'd right click on the Kobo device and click on "Uninstall Driver," unplug the Kobo, reboot, open up Device Manager and then re-plug in the Kobo to see if it'll work then. It's weird that it would stop working after awhile.
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