Fungicide application is the most widely adopted method to control white mold epidemics in several crops. The objectives of this study were to assess the sensitivity to thiophanate-methyl (TM), fluazinam and procymidone of 238 Sclerotinia sclerotiorum isolates collected during 2014 to 2017 from soybean (n = 77 isolates), dry bean (49), cotton (28), tomato (22), sunflower (17), and other (45) hosts, in different regions in Brazil; to investigate any mutation in the genome of resistant isolates; and to assess the phenotypic stability of resistant isolates. Fungicide sensitivity was assessed using discriminatory doses for TM (5 mu g/mL), fluazinam (0.05 mu g/mL), and procymidone (0.5 mu g/mL). Compared to the controls, the mycelial growth inhibition of the sensitive isolates by fluazinam, procymidone, and TM varied from 76 to 94%; 68 to 96%; and 67 to 98%, respectively. There was no evidence of resistance to fluazinam or procymidone, but 13 isolates from dry bean fields were resistant to TM, all had a mutation at codon 240 (L240F) of the beta-tubulin gene. The phenotypic stability of TM resistant isolates was evaluated during and after 10 transfers in culture medium without fungicide. The mycelial growth rate of six TM-resistant isolates reduced with successive transfers, but there was no reversion to a sensitive phenotype. Resistant isolates to TM were more frequently observed in the northwestern region of Minas Gerais state; and there is evidence for altered growth pattern in vitro for resistant isolates. Management of resistant populations must employ fungicides with different modes of actions.