Two new species of Imparfinis are described from the trans-Andean region of Colombia. Imparfinis timana is diagnosed by having longer anal fin base (12.4-15.5% in SL), in combination with long adipose fin (24.6-31.3% in SL), 5-6 gill rakers on the first ceratobranchial, 42-43 vertebrae and additional measurements. Imparfinis usmai is distinguished by the combination of first ray of dorsal fin longest, but not projected as a long filament, long adipose fin (21.1-27.0% in SL), maxillary barbel exceeding pelvic-fin base, 39-40 vertebrae, upper caudal-fin lobe pointed and longer than lower lobe, lower lobe rounded, 7-8 gill rakers on the first ceratobranchial, as well as additional measurements. Imparfinis timana is only known from río Guarapas, a small tributary of the upper course of the río Magdalena. Imparfinis usmai is broadly distributed in the upper basin of ríos Cauca and Magdalena, and in the lower Patía river basin. The restricted distribution of I. nemacheir to trans-Andean drainages (Atrato, Magdalena, and Lago de Maracaibo) is also discussed.