The purpose of this study is to analyze the charging gas effect on the resonance and performance characteristics of the linear compressor for small scale FPFD Stirling refrigerator. To ensure high performance of FPFD type Stirling refrigerator, the operating frequency of the refrigerator should be around the natural frequency of compressor. The gas spring effect which is induced from Pressure change in cylinder due to motion of pistons has significant effect on the natural frequency of the compressor. The numerical results show the linear compressor has high natural frequency when the charging pressure of working fluid is high and the stroke of compressor, current, input power and efficiency of compressor were shown with different operating conditions.