1999 Cork Junior A Football Championship

The 1999 Cork Junior A Football Championship was the 101st staging of the Cork Junior A Football Championship since its establishment by Cork County Board in 1895. The championship ran from 17 October to 5 December 1999.

The final was played on 5 December 1999 at Páirc Uí Rinn in Cork, between Youghal and Ilen Rovers, in what was their first ever meeting in the final. Youghal won the match by 3–08 to 1–13 to claim their third championship title overall and a first title in 93 years.