ŠK Slovan Bratislava were the defending champions and successfully retained their league title.

A total of 12 teams competed in the league, including 11 sides from the 2012–13 season and one promoted from the 2. liga.

FC Tatran Prešov to the 2013–14 Slovak Second Football League was confirmed on 26 May 2013.

The one relegated team was replaced by FK DAC 1904 Dunajská Streda.

Manager of the season Jozef Valovič (ŠK Slovan) and Radoslav Látal (MFK Košice) Player of the Year Róbert Vittek (ŠK Slovan) Young player of the Year Martin Chrien (Dukla Banská Bystrica)