In the spring of 1999, Banović was part of the Croatian squad at the 1999 FIFA World Youth Championship in Nigeria, where he appeared as a second-half substitute in all of the team's four matches before they were eliminated by Brazil in the round of 16, also scoring one goal in Croatia's 5–1 victory over Kazakhstan in their second group match. He also played for the Croatian national under-21 team at the final tournament of the UEFA U-21 Championship 2000 in Slovakia.