A high-fidelity numerical analysis methodology was proposed for evaluating the fuel rod cladding integrity of a Prototype Gen IV Sodium Fast Reactor (PGSFR) during normal operation and Design basis events (DBEs). The MARS-LMR code, system transient safety analysis code, was applied to analyze the DBEs. The results of the MARS-LMR code were used as boundary condition for a 3D computational fluid dynamics (CFD) analysis. The peak temperatures considering HCFs satisfied the cladding temperature limit. The temperature and pressure distributions were calculated by ANSYS CFX code, and applied to structural analysis. Structural analysis was performed using ANSYS Mechanical code. The seismic reactivity insertion SSE accident among DBEs had the highest peak cladding temperature and the maximum stress, as the value of 87 MPa. The fuel cladding had over 40% safety margin, and the strain was below the strain limit. Deformation behavior was elucidated for providing relative coordinate data on each active fuel rod center. Bending deformation resulted in a flower shape, and bowing bundle did not interact with the duct of fuel assemblies. Fuel rod maximum expansion was generated with highest stress. Therefore, it was concluded that the fuel rod cladding of the PGSFR has sufficient structural safety margin during DBEs.