The 1999 Fitzgibbon Cup was the 86th staging of the Fitzgibbon Cup since its establishment by the Gaelic Athletic Association in 1912.[1] The first-round games were held on 30 January 1999, with Garda Síochána College hosting the latter stages of the cup from 27 to 28 February 1999.
On 28 February 1999, Waterford Institute of Technology won the Fitzgibbon Cup after beating University College Cork by 4–15 to 3–12 in the final. This was their third cup title overall and their first title since 1995.