The specific features of the functioning of parasitic systems of tertian malaria were found in the elimination period when the number of foci and patients were drastically reduced. Despite the sporadic cases of tertian malaria, in 2009-2012 each of the 9 areas of the Kurgan Tyubin zone, Khatlon Region notified 12 of the 43 active foci with single manifestations of malaria after a long incubation period in the following spring or March-April a year later. The results of these investigations should be borne in mind when planning and implementing antimalarial measures.