The utilization of precise materials in heterogeneous catalysis will provide various new possibilities for developing superior catalysts to tackle worldwide energy and environmental issues. In recent years, single atom catalysts (SACs) with excellent atom utilization and isolated active sites have progressed dramatically as a thriving sector of catalysis research. Additionally, SACs bridge the gap between homogeneous and heterogeneous catalysts and overcome the limitations of both categories. Current research on SACs is highly oriented towards the organic synthesis of high-significance molecules with promising potential for large-scale applicability and industrialization. In this context, this review aims to comprehensively analyze the state-of-the-art research in the synthesis of SACs and analyze their structural, electronic, and geometric properties. Moreover, the unprecedented catalytic performance of the SACs towards various organic transformation reactions is succinctly summarized with recent reports. Further, a detailed summary of the current state of the research field of SACs in organic transformation is discussed. Finally, a critical analysis of the existing challenges in this emerging field of SACs and the possible countermeasures are provided. We believe that SACs have the potential to profoundly alter the chemical industry, pushing the boundaries of catalysis in new and undiscovered territory.