The demand for transport refrigeration system in Bangladesh is rising at a tremendous pace. However, there is a considerable lack of knowledge in the vehicle body design, cooling load management and appropriate product storage pattern inside the transport refrigerated vehicles. A numerical analysis is carried out to assess the performance of refrigerated vehicles with proposed design modifications which include horizontal and vertical partitioning or shelving of the refrigerated chamber. Computational fluid dynamic (CFD) modelling is used to study and compare the outcome of the proposed models to that of the conventional design and storage practices followed locally. It is found that the thermal performance improves more when vertical partitioning of the chamber is introduced. The percentage of stored products within an acceptable temperature increases up to 200% in certain case of chamber partitioning and modified storage pattern. Several scenarios with chamber design modification and storage pattern are studied, the results are reported here in detail.