Pteridophytes, encompassing ferns and fern allies, are integral components of terrestrial ecosystems worldwide. These vascular plants characterized by their spore-based reproduction, fulfil various ecological roles such as influencing biodiversity, soil stability, nutrient dynamics, and ecological succession. Similar to higher plants, pteridophytes too are known to have close symbiotic associations with a diverse array of microorganisms, including bacteria, fungi and actinomycetes. Exploring the microbial diversity in pteridophytes has prospects both in pure and applied research. Research on pteridophyte microbial communities have revealed their role in plant growth promotion, nutrient acquisition and tolerance against stresses. Besides, it would be interesting to unravel the microbial diversity associated with pteridophytes, which are the first vascular plants. Further, study of pteridophytes-associated microbes would also help in conservation programmes of these rare and endangered group of plants. In spite of the immense potential of pteridophyte microbiome, only few studies have been undertaken in this area, thereby creating a huge research gap. Hence, this review compiles pteridophyte microbiome research, and explores its prospects in agricultural sustainability. Our literature survey sheds light on the tremendous potential of pteridophyte-associated microbes as plant growth promoters and biocontrol agents for sustainable agriculture, which is highly relevant in the era of climate change.