After Bosnia and Herzegovina became an independent state in 1992, Zrinjski was reestablished in Međugorje. Because of the ongoing war, for the first two years Zrinjski played only friendly games, mostly in Herzegovina and Croatia, but also in Canada and Germany. In 1994, Zrinjski, along with other Croat clubs from Bosnia and Herzegovina helped create the Herzeg-Bosnia Football Federation. The club participated in its league for seven seasons, and was one best teams over the years. Some of the notable players at that time were Blaž Slišković and Slaven Musa, both FK Velež Mostar players before that. In 1998, Zrinjski participated in the first playoffs with teams from Bosniak-ruled parts of Bosnia and Herzegovina. In 2000, the Premier League included both clubs from Bosniak-ruled and Croat-ruled parts of the country for the first time, and Zrinjski was one of the clubs competing in the league and still is today. Clubs from Serb-ruled parts of Bosnia and Herzegovina