In this paper, a water-based aerosol particle counter was used to measure aerosol number concentrations with high temporal resolution at a meteorological tower and on the ground, and the ultrasonic anemometer on the meteorological tower measured the data of the three-dimensional wind speed. The power spectrum of the aerosol particle number concentration fluctuation was obtained by using a Fourier transform, and the characteristics of the power spectrum were deeply analyzed. The results show that the aerosol concentration fluctuation power spectrum satisfies the Monin–Obukhov law in the low-frequency (0.02–0.25 Hz) part of the inertial subregion, which is consistent with the characteristics of atmospheric turbulent motion. Significant attenuation occurs in the high-frequency (0.3–5 Hz) range, which is mainly caused by the attenuation of the aerosol concentration by the intake pipe. Using the similarity of the power spectrum in the low-frequency part, using the “−5/3” line as a standard, the characteristic time of the measurement system is obtained by fitting the transfer function. The results show that in the flux measurement experiments in this paper, the characteristic time is usually less than 1 s. Finally, this paper uses the Fourier transform and wavelet transform to correct the high-frequency attenuation in the fluctuation of aerosol concentration and obtains the corrected aerosol flux. The results show that the effect of high-frequency attenuation on the flux is approximately 1–4% in this experiment.