The aim of this research was to determine the differences among the top football players of the two Montenegrin club FC Sutjeska and FC Mladost in the morphological characteristics and body composition. A sample of 40 examinees was divided into two sub-samples. The first sub-sample of the examinees consisted of 23 players of FC Sutjeska of the average age 21.69±4.30, the champions of the Cup of Montenegro in the season 2016/17, while the other sub-sample consisted of 17 players of FC Mladost of the average age of 24.59±4.66, the vice champions of the Montenegrin Championship in the season 2016/17. Football players were tested immediately after the end of the competition season 2016/17. Morphological characteristics in the body composition were evaluated by a battery of 11 variables: body height, body weight, body mass index, fat percentage, muscle mass, bone mass, waist size, triceps skin set, biceps skin set, back skin set and abdominal skin set. The standard central and dispersive parameters of all variables were calculated. The significance of the differences between the players of the top two football clubs in the morphological characteristics and variables for assessing body composition was determined by a t-test for independent samples. It was found that the football players of the two mentioned clubs have statistically significant differences by the two variables that estimate the amount of fat percentage and the amount of subcutaneous fat tissue on the back in a favor of FC Sutjeska.