Researchers continue to focus on synthesizing novel nanomaterials (NMs) by using environmentally friendly, nontoxic, and facile processes, like biological systems, to enhance the utilization of NMs. Preferential adoption of biological systems for NMs synthesis surpasses traditional chemical methods, which can pose environmental risks. Endophytes are organisms in micron size that sustain inside plant tissues, displaying a non-harmful relationship with the plants. Endophytic microorganisms (EMs) encompass bacteria, archaea, yeast, fungi, and viruses, and they can produce a diverse array of secondary metabolites, rendering them well-suited agents for the production of NPs. Recently, a novel development in research at the intersection of biology and nanotechnology has emerged through an endophyte-mediated synthesis of NPs. The green or endophytic driven NPs synthesis is one of the most ecological and eco-friendly methods regarded as potential biofactories. These fungi help synthesize NPs and improve stability, controlled size, and biocompatibility, significantly affecting the NPs’ efficacy at end applications.