This study is to investigate fuel cladding temperature in a transport system for the purpose of developing a methodology for evaluating the thermal performance of spent fuel. Detailed temperature analysis in the transport system is important because the degradation mechanism of the fuel cladding is generally sensitive to temperature and temperature history. In such a system, the magnitude of the temperature change is determined by examining the temperature sensitivity of fuel assemblies and system components including fuel cladding temperature, considering the material properties, component specifications, component aging mechanism, and heat transfer mechanism. The sensitivity analysis is performed using heat transfer models by computational fluid dynamics for the horizontal transport system. The heat transfer within the system by convection, conduction and thermal radiation is calculated by thermal-hydraulic analysis code FLUENT. The calculation region is divided into a basket cell and a transport cask. The thermal analysis of the basket cell is for predicting the fuel cladding temperature. And the reason for analyzing the transport cask is to provide the boundary condition for the basket cell by reflecting the external environmental conditions. Here, the basket cell containing the spent fuel assembly is modeled on the homogeneous effective thermal conductivity. The purpose of this analysis is to evaluate fuel cladding temperatures for the following four main items. That is the effect of surface emissivity changes in basket due to the oxide layer of the fuel cladding, the effect of degradation of the canister backfill helium gas, the effect of fuel assembly position in basket cell on fuel cladding and basket temperatures in canister, and the effect of using the homogeneous effective thermal conductivity model instead of the fuel assembly in basket cell. As a result of the analysis, the maximum temperatures in basket cells are evaluated for the above four items. Thermal margins for each item are investigated for thermal performance requirements (e.g., peak clad temperature below 400oC).