@lazyreadr: Huh. Next question then:
* On which distro is that?
* Were you using the latest install script (I would assume so, but, who knows ^^).
* Was the device unmounted properly?
----
As far as your next steps are concerned, the idea is basically similar to
this post, except you can skip the first bullet point, so, roughly:
* Plug
* Make sure the config file has been edited with the exclude regex.
* Eject/Unplug
* Watch Nickel destroy the offending icons (keep the comment about there being no clear way to follow the progress of that operation in mind).
* Reinstall KOReader/Plato