Gain saturation is ubiquitous but has not been fully explored in the newly developed field of non-Hermitian optics. On the other hand, the nonclassical properties of light are highly relevant to the gain saturation that influences the quantum noise accompanying light amplification. In this paper, we systematically examine the gain saturation effects in a non-Hermitian system of coupled gain-loss waveguides. We explain the impact of gain saturation on a quantum light field dynamically evolving in the coupled system. In contrast to the ideal situation without gain saturation, one can achieve a quasisteady state under the gain saturation. Moreover, gain saturation reduces the influence of amplification noise and thereby better preserves such quantum features as entanglement. We illustrate the effects of gain saturation by examining the time evolution of the Wigner function, entanglement of the light fields, and the cross-correlation function between the two output modes. Significant differences exist between unsaturated and saturated situations, especially for low photon numbers.