 After almost one year out of football, Kowalczyk returned to his country and his main club, Legia.In late 2001 he changed countries again, joining Cyprus' Anorthosis Famagusta FC and netting a career-best 24 goals; after a nearly non-existent second season he finished his professional career in the same country, with APOEL FC, retiring at 32 – afterwards, he would play in amateur football until 2006, with AZS Absolwent UW Warszawa.Kowalczyk gained 39 caps for Poland, scoring 11 goals.