Endophytic fungi are microorganisms that colonize internal plant tissues without causing immediate negative effects, being present in virtually the entire plant kingdom. Despite this, much of its biotechnological potential is unknown, and its identification is still recent. Peppermint, popular name of the genus Mentha, is a perennial plant native of Europe with various applications in cosmetics, pharmaceuticals, food and hygiene products. The objective of this work was the isolation and identification of endophytic fungi from leaves of two peppermint species, Mentha piperita and Mentha canadensis. Identification was performed by macro and micromorphology and by the sequencing of the ITS1-5.8S-ITS2 region of ribosomal DNA and partial ß-tubulin gene. Thirty-five endophytes were identified in total, belonging to the genus Alternaria, Aspergillus, Curvularia, Epicoccum, Fusarium, Penicillium, Periconia and Phoma and the order Xylariales. This is the first report of endophytic fungi diversity in M. canadensis, and provides knowledge on their future use on biotechnological processes.