The 1999 Kilkenny Senior Hurling Championship was the 105th staging of the Kilkenny Senior Hurling Championship since its establishment by the Kilkenny County Board.

The draw for the opening round fixtures took place on 12 July 1999.

The championship began on 21 August 1999 and ended on 24 October 1999.

On 24 October 1999, Glenmore won the title after a 1–14 to 2–08 defeat of Graigue-Ballycallan in the final at Nowlan Park.

Promoted from the Kilkenny Intermediate Hurling Championship Relegated to the Kilkenny Intermediate Hurling Championship