| Slovak Cup | |
| Year: | 1999–2000 |
| Country: |  Slovakia |
| Num Teams: | 42 |
| Champions: | Inter Bratislava |
| Runner-Up: | 1. FC Košice |
| Prevseason: | 1998–99 |
| Nextseason: | 2000–01 |
The 1999–2000 Slovak Cup was the 31st season of Slovakia's annual knock-out cup competition[1] and the seventh since the independence of Slovakia. It began on 25 July 1999 with the matches of preliminary round and ended on 8 May 2000 with the final. The winners of the competition earned a place in the first round of the UEFA Cup. Slovan Bratislava were the defending champions.
The first legs were played on 25 July 1999. The second legs were played on 4 August 1999.|}
The games were played on 21 and 22 September 1999.|}
The games were played on 12 October 1999.|}
The games were played on 26 October 1999.|}
The first legs were played on 4 April 2000. The second legs were played on 18 April 2000.