Salinization and drought are the most important abiotic stress factors causing significant impact to the agriculture of Uzbekistan. To eliminate the negative consequences of the drying of the Aral Sea, large-scale works are currently being conducted on this territory to create protective forest plantations of halophytic trees and shrubs. An important issue in the protection of forest plantations is the isolation identification, and monitoring of phytopathogenic and endophytic fungi associated with these forest plantations. As a result of the study, 35 strains of endophytic fungi were isolated from plant samples of black saxaul - Haloxylonaphyllum (Minkw.) Iljin, and two tamarix species –TamarixhispidaWilld., Tamarixramossisima Ledeb. The dominant species were 7 species: Alternariatenuissima (Kunze) Wiltshire, Trichodermaviride Pers., Ulocladiumconsortiale (Thiim) E.G. Simmons, Acremonium sp., Chaetomium sp., Stemphylium sp., Alternaria sp. Pure cultures of fungal strains isolated within the framework of this study were deposited in the "Collection of a unique object of phytopathogenic and other microorganisms of the Academy of Sciences of the Republic of Uzbekistan" at the Institute of Genetics and plant experimental biology of the Academy of Sciences of the Republic of Uzbekistan. Isolates of endophytic and phytopathogenic fungi obtained in this study can be used in the future for an in-depth investigation of their biological properties, development of measures to control fungal diseases of forest plantations and identification of new biologically active substances for agriculture and biotechnological use.