The 1998–99 Ukrainian Amateur Cup was the third annual season of Ukraine's football knockout competition for amateur football teams. The competition started on 25 October 1998 and concluded on 17 June 1999.
This also was the first season of amateur cup football competitions that was administered by newly created (in 1998) Ukrainian Football Amateur Association.
Five regions did not provide any teams for the tournament, among which were Crimea, the oblasts of Cherkasy, Kherson, Rivne, and Kyiv City.
Bracket
The following is the bracket that demonstrates the last four rounds of the Ukrainian Cup, including the final match. Numbers in parentheses next to the match score represent the results of a penalty shoot-out.