As a sustainable, cost-effective and energy-efficient method, membranes are becoming a progressively vital technique to solve the problem of the scarcity of freshwater resources. With these critical advantages, carbon nanotubes (CNTs) have great potential for membrane desalination given their high aspect ratio, large surface area, high mechanical strength and chemical robustness. In recent years, the CNT membrane field has progressed enormously with applications in water desalination. The latest theoretical and experimental developments on the desalination of CNT membranes, including vertically aligned CNT (VACNT) membranes, composited CNT membranes, and their applications are timely and comprehensively reviewed in this manuscript. The mechanisms and effects of CNT membranes used in water desalination where they offer the advantages are also examined. Finally, a summary and outlook are further put forward on the scientific opportunities and major technological challenges in this field.