As a daughter of a famous Serbian coach, four-times Euroleague winner Božidar Maljković, Marina Maljković has been given an opportunity to start coaching career at the age of 16, when she became an assistant coach in Abeilles de Rueil, a French club she was playing for at the time. In 2002, she graduated from The College for Sports Coaches in Belgrade. In the same year, she became the head coach of the female section of KK Ušće, aged 21. She was the coach of the youth categories, and, at the same time, she managed to lead the senior team as the club advanced from the third to the first league of Serbia and Montenegro in just two years. In 2007, Maljković became the head coach of the female section of ŽKK Hemofarm, winning two league titles and two national cups in the following two years. In 2009, she moved to ŽKK Partizan. In the following four years, Partizan has won four national championships, two national cups and two Women's Adriatic League titles. Maljković has been the national champion of Serbia for six consecutive seasons, and has won six "Coach of the Year" awards. In September 2013, Maljković signed a two-year contract with Union Lyon Basket Féminin, a club competing in the Ligue Féminine de Basketball, the top women’s French professional basketball league. In June 2018, she signed for the Shanghai Swordfish of the WCBA.
Maljković was an assistant coach of the Serbia and Montenegro national Under-18 team, which has achieved fourth place at the 2004 FIBA Europe Under-18 Championship for Women, as well as Serbia and Montenegro national Under-19 team at the 2005 FIBA Under-19 World Championship for Women, which has won the silver medal after finals loss to the team USA. In August 2011, Maljković has been appointed head coach of the Serbia women's national basketball team. At the EuroBasket Women 2013, Serbia national team managed to pass into the semifinals, which was the greatest national team success since the breakup of Yugoslavia in 1991. Aged 32, Maljković was the youngest, and the only female head coach at the championship. She led the team once again at the EuroBasket 2015 in Budapest where they won the gold medal, and qualified for the 2016 Olympics, first in the history for the Serbian team. In the autumn of 2015, she extended her contract with the Basketball Federation of Serbia to be the team's selector over next four years; she also requested that one third of her salary be forwarded to all 12 clubs of the First Women's Basketball League of Serbia. In January 2017, she left the head coaching position. On 14 December 2017, Maljković has been appointed head coach of the Serbia national team for the second time.
