Endophytic fungi living in intracellular without any negative symptoms of their host and synthase natural bioactive products considered as an elicitor for plant secondary metabolites production. The structural diverse and complex of the natural compounds synthesis by endophytic fungi make them an important rich source of secondary metabolites with novel and unique structures that can help in the treatment of various human diseases. The review focused secondary metabolites with their structure and chemical diversity from the plant-associated endophytic fungi. Moreover, reported to exhibit diverse pharmacological properties such as antimicrobial, antioxidant, anti-inflammatory, anticancer and inhibitory activities. This review discus a total 130 novel bioactive natural compounds isolated from the different species of fungal endophytes reported from 2020 to 2022.