Nanomaterials have been widely used in cement-based materials. Graphene has excellent properties for improving the durability of cement-based materials. Given its high production budget, it has limited its wide potential for application in the field of engineering. Hence, it is very meaningful to obtain low cost nanoplatelets from natural materials that can replace graphene nanoplatelets (GNPs) The purpose of this paper is to improve the resistance to chloride ion penetration by optimizing the pore structure of cement-based materials, and another point is to reduce investment costs. The results illustrated that low cost CaCO3 nanoplatelets (CCNPs) were successfully obtained under alkali treatment of seashell powder, and the chloride ion permeability of cement-based materials significantly decreased by 15.7% compared to that of the control samples when CCNPs were incorporated. Furthermore, the compressive strength of cement pastes at the age of 28 days increased by 37.9% than that of the plain sample. Improvement of performance of cement-based materials can be partly attributed to the refinement of the pore structure. In addition, AFM was employed to characterize the nanoplatelet thickness of CCNPs and the pore structures of the cement-based composites were analyzed by MIP, respectively. CCNPs composite cement best performance could lay the foundation for further study of the durability of cement-based materials and the application of decontaminated seashells.