Satellite laser communication holds the potential for high-bandwidth communication, but the atmosphere can significantly affect the capability of this type of communication systems for satellite-toground and ground-to-satellite data links to transfer information consistently and operate effectively. Usually the influence of atmosphere on satellite laser communication is investigated based on the Kolmogorov turbulence model. However, both increasing experimental evidence and theoretical investigations have shown that the Kolmogorov theory is sometimes incomplete to describe the atmospheric statistics properly, in particular, in some portions of the atmosphere. Considering a non-Kolmogorov turbulent power spectrum with power law −5 that describes the refractive-index fluctuations in the atmosphere above 6 km, we calculate the scintillation index of a lowest-order Gaussian-beam wave under the weak-fluctuation condition. Then, considering a combined power spectrum of refractiveindex fluctuations and using the expression obtained, we analyze the joint influence of the Kolmogorov turbulence from the ground to 6 km and non-Kolmogorov turbulence above 6 km on the scintillation indices of laser beams used in ground-to-satellite and satellite-to-ground laser communication links. We show that the scintillation index in satellite laser communication is equal to the sum of the scintillation indices induced by the Kolmogorov turbulence from ground to 6 km and that caused by the non-Kolmogorov turbulence above 6 km. Also we investigate variations of the scintillation index with the beam radius on the transmitter, wavelength, the radial distance, and zenith angle. Finally, comparing the scintillation index induced by these two turbulences with the conventional results, we show that the scintillation index induced by these two turbulences is a bit smaller than the conventional results.