The 1999 season was Molde's 24th season in the top flight of Norwegian football. This season Molde competed in Tippeligaen, the Norwegian Cup and the UEFA Champions League. In Tippeligaen, Molde finished in 2nd position, 6 points behind winners Rosenborg. Molde participated in the 2000 Norwegian Cup. They defeated Spjelkavik, Sunndal, Strindheim, Kjelsås on their way to the quarterfinal where they defeated Lillestrøm with 3–0 at home. On 3 October 2000, Molde lost the semifinal vs. Brann at home with the score 3–4 after extra time.