hi chris, are you using the latest version 1.05.12?
this was an issue in older versions but i thought it was fixed in the recent builds.
essentially f&r tries to be clever and auto-detect the "start with windows" option by looking in the start menu -> startup directory, and setting and removing the entry there.
so a failure to disable means that its not successful in removing that entry.
to manually remove, just click on your start menu, go to "Programs' -> "Startup" and delete the entry for "Find&Run Robot"