(1) If errors point to an empty area then it's most likely that the error has been given in the coordinate system of a subcell while you're looking at the top leve, or vice versa. (2) The klayout DRC deck was recently developed, so if you happen to find that this is a false positive, please raise an issue on the efabless helpdesk or the issue tracker for the precheck system on github (I think it's public?).