Accurate actuator tracking is critical to achieve reliable real-time hybrid simulation results for earthquake engineering research. The frequency-domain evaluation approach provides an innovative way for more quantitative post-simulation evaluation of actuator tracking errors compared with existing time domain based techniques. Utilizing the Fast Fourier Transform the approach analyzes the actuator error in terms of amplitude and phrase errors. Existing application of the approach requires using the complete length of the experimental data. To improve the computational efficiency, two techniques including data decimation and frequency decimation are analyzed to reduce the amount of data involved in the frequency-domain evaluation. The presented study aims to enhance the computational efficiency of the approach in order to utilize it for future on-line actuator tracking evaluation. Both computational simulation and laboratory experimental results are analyzed and recommendations on the two decimation factors are provided based on the findings from this study.