The formation of a systemic organization at different stages of long-term improvement in cyclical sports is necessary when applying the scientific and methodological principles of the management structure of the training process. The current state and development of world rowing is characterized by a relentless search for more effective means of pedagogical influence, modern methods, specific forms of control, organization and correction of training of athletes. Modern sport is characterized by everincreasing competition and continuous growth of results, has a significant number of reasonable approaches aimed at developing of the rowers functionality. However, this section of training high-class athletes remains the most problematic. High requirements for the level of functionality of rowers are put forward, due to the complexity of technical and tactical actions, which depend on the specialization, the rhythm of work on a distance, tempo fluctuations, reaction to the fleeting actions of rivals. The purpose of the study is to determine the features of the training of 20–21 years old rowers on kayaks on the basis of testing the effectiveness of the developed method, taking into account the individual motor aptitude. To implement the goals and objectives of the study a set of methods has been used: analysis and generalization of special scientific and methodological literature on the research topic; pedagogical experiment; pedagogical observations of the educational and training process, where the parameters of physical activity during classes were recorded; assessment of the functional state of athletes according to the indicators of vital capacity, Kverg functional test, Kerdo index; assessment of indicators of general physical fitness of athletes. It was found that the developed methodology, taking into account the individual types of manifestation of physical qualities in the training of rowers, significantly affected their functional indicators and indicators of general physical fitness. The effectiveness of the developed method of training of 20–21 years old rowers on the basis of taking into account their types of motor training has been experimentally confirmed. Levels of physical fitness of 20–21 years old rowers on kayakers have been developed.