Медимурие Чаковец

The club was founded in June 2003 and started to compete in the Croatian Second League, where they replaced NK Omladinac, a club based in the Čakovec suburb of Novo Selo Rok. They finished top of the league at the end of the 2003–04 season, clinching promotion to the Croatian First League.

They started their first season in the top flight with three defeats in their opening three matches, before beating Zagreb 1–0 on the road on Day 4 to clinch their first win of the season. However, they continued to experience very little success after that, only grabbing two further wins in the following 18 matches and being bottom of the table as the league split into two groups in March 2005. Their performance improved in the bottom-6 group, the Relegation League, where they had a streak of seven games undefeated and finished in second to last place, overtaking Zadar on the final day of the season.

In their second top-flight season in 2005–06, they once again found themselves bottom of the table in March, although with five wins and only one point fewer than both Inter Zaprešić and Slaven Belupo. After three defeats in their opening three matches in the Relegation League, they managed a streak of seven games undefeated and overtook Inter Zaprešić after beating them on the penultimate day of the season. Međimurje secured their top-flight status after a 4:0 win against Cibalia on the final day, and avoided the relegation play-off because their opponent, NK Belišće, was not licensed.

In 2006–07, they experienced mixed fortunes in their opening seven games, but then managed four consecutive wins and even found themselves in fourth place after the 11th round. They eventually finished the season in 9th place, their best result in the top flight, with 11 wins in 33 matches. The 2007–08 season, however, brought very little success and they found themselves bottom of the table for the majority of the season. They eventually finished rock-bottom, with only 15 points and mere three wins from 33 matches, 18 points behind the 11th-place Inter Zaprešić, and were relegated to the Croatian Second League.

In 2008–09, they finished fifth in the Croatian Second League, but were nevertheless directly promoted back to the Croatian First League for the 2009–10 season as the league was expanded to 16 teams and Slavonac CO, who finished above them, decided to withdraw from the top flight after failing to secure a proper stadium as their home ground.

In the first half of the 2009–10 season, they performed well at home, recording five wins and two draws in nine matches, but poor performance on the road (they lost all eight away matches) saw them start the second half of the season in 13th place, just above the relegation zone. Despite winning two away matches in the second half of the season, a series of draws and defeats (including a crushing 5–1 defeat at home to Rijeka) saw them dropping into the relegation zone with six matches left. A 4–1 defeat at Hajduk Split on the penultimate day of the season confirmed their 15th-place finish and relegation back to the second division. The 4–1 loss was later investigated for match fixing allegations.

In the 2010–2011 season, they finished seventh in the Croatian Second League, they finished strong in the last six games but that was not enough to return to Croatian First League. During the season they had three managers. In Croatian Football Cup they lost to HNK Rijeka in the away match 1:0 in the last 16 round.

The 2011–2012 season was tough for the former first-division club marking their first relegation to third-level football in Croatia. Međimurje employed four managers during the season.

Međimurje then performed well in the third division for a number of years, but were never promoted because the club did not meet the financial criteria for the second division. The seasons 2012-2013 and 2013–2014 marked success in the Croatian Third League North, finishing in 2nd in 2013 and in 1st in 2014. The period of success continued in the next three consecutive seasons. In 2014–2015, 2015-2016, and 2016-2017 they finished third, first and first in Croatian Third League East, led by manager Mario Kovačević.

The club were finally promoted in 2017–18, when they were managed by Matija Kristić.

Season 2018-2019 was first season in Croatian Second League after six seasons in third level football in Croatia. They started very well, and after six rounds they were in second position behind NK Varaždin. After the sixth round, they were in a battle to avoid relegation and they succeeded in the last round with a win in the home match against NK Zadar.

The 2019-2020 season was cancelled due to the worldwide pandemic of Coronavirus (COVID-19), and before the pandemic started they were in 10th place of 16 teams in the Croatian Second League. The manager at the start of the season was Matija Kristić but he was sacked after the third round, and was succeeded by young manager Damir Lepen-Jurak.

In the 2020–21 season, NK Međimurje signed former player of NK Međimurje Goran Vincetić. The season started excellently, after twelve rounds they were second behind NK Hrvatski Dragovoljac but then Coronavirus cases were found in the team players, so the team was in isolation for two weeks. The team performed poorly in the last four matches with all four lost. Goran Vincetić was sacked mid-season and former manager of NK Međimurje Mario Kovačević was hired. Kovačević started badly with the team so he was also sacked after only five games. Davor Mladina was also hired but he only lasted two games with both losses. In late March Marijan Uršanić stepped down as president and August Jesenović was appointed as the new president. He hired Marko Lozo as the new manager, but he also did not make good results so he was sacked after a 1:6 loss against HNK Hajduk II. The last two fixtures was led by Nikola Goričanec who was the assistant coach to all four managers this season. After a long season, NK Međimurje was relegated to the third division.

In 2021-22 the team had a good start in the Croatian Third League group North, but a bad second half of the season almost meant they lost out on promotion. However, the club qualified for the new third division by defeating NK Hrvatski Vitez 3:0. Even with promotion, the club lost the county cup for the first time in 5 seasons.