This study was performed to assess the cosmic-ray effect caused by altitude in the aerial gammaray measurement. For the gamma-ray measurement experiment by altitude, the aerial survey system composed of four 4×4×16 inches large volume NaI (Tl) detectors was used. The aerial survey system was installed in a rotor-craft to stably keep its flight altitude and position. In addition, in order to avoid to time-dependent shielding effects with the amount of fuel, a rotor-craft of which the fuel tank is not located beneath the cabin floor was selected. In this study, the ROI (Region Of Interest) was set to the 3~6 MeV range to assess the cosmic-ray contribution to the gamma-ray spectrum that could ignore the contribution of the dominant natural radionuclides. The gamma-ray spectra measured inside and outside of the rotor-craft on the ground were compared to evaluate the shielding effects of the aircraft body. As a result, the count rate of the 40K photo peak was decreased by about 10% when measuring the inside compared to the outside. On the other hand, the total count rate of the 3~6 MeV region was decreased by about 0.7% under the same condition. Therefore, the aircraft body effect was insignificant in 3~6 MeV region considering the relative uncertainty of 0.04~0.78% (1σ). In addition, the count rate in the 3~6 MeV range according to altitude was evaluated to assess the cosmic-ray effect. In order to evaluate the change in the ROI count rate according to the altitude, the gamma-ray spectrum was measured in the range of 300~2,000 m above the sea to avoid the effect of terrestrial radiation. As a result, the relationship between altitude and count rate in the 3~6 MeV range showed a high correlation with the R2 value of 0.99, when the approximate equation was derived in the form of a quadratic polynomial. Also, the count rate of 3~6 MeV at 50~500 m above the ground was estimated using the correlation equation, and this value was compared with the measured count rate. As a result of comparing the average value of estimated count rate and measured count rate, the relative difference is less than 2%. Considering the relative uncertainty of 0.78~4.11% (1σ), it was possible to evaluate the count rate of the 3~6 MeV region relatively accurately. The results of this study could be used for further study on background dose corrections in aerial survey.