The applications of nanoreactors in biology are becoming increasingly significant and prominent. Specifically, nanoreactors with spatially confined, due to their exquisite design that effectively limits the spatial range of biomolecules, attracted widespread attention. The main advantage of this structure is designed to improve reaction selectivity and efficiency by accumulating reactants and catalysts within the chambers, thus increasing the frequency of collisions between reactants. Herein, the recent progress in the synthesis of spatially confined nanoreactors and their biological applications is summarized, covering various kinds of nanoreactors, including porous inorganic materials, porous crystalline materials with organic components and self‐assembled polymers to construct nanoreactors. These design principles underscore how precise reaction control could be achieved by adjusting the structure and composition of the nanoreactors to create spatial confined. Furthermore, various applications of spatially confined nanoreactors are demonstrated in the biological fields, such as biocatalysis, molecular detection, drug delivery, and cancer therapy. These applications showcase the potential prospects of spatially confined nanoreactors, offering robust guidance for future research and innovation.