Akritas Chlorakas won their 2nd title.
Fourteen teams participated in the 2008–09 Cypriot Third Division.
The team with the most points at the end of the season crowned champions.
The first three teams were promoted to the 2009–10 Cypriot Second Division and the last three teams were relegated to the 2009–10 Cypriot Fourth Division.
Teams promoted to 2008–09 Cypriot Second Division Teams relegated from 2007–08 Cypriot Second Division Teams promoted from 2007–08 Cypriot Fourth Division Teams relegated to 2008–09 Cypriot Fourth Division