Ok lol.
It most likely takes some time to fix the fences, it might sit a few seconds before attempting to fix again, what exacly was it doing, were there any messages in the logger? The notes in Rune Mysteries are obtained during the quest not from your bank, they are handed to you by the wizard during quest. Try to let the script do quests from start to finish without interrupting it as in some situations there is no way to detect precisely on which quest stage it is.
Sure.