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The gain flattening of the erbium doped fiber amplifier (EDFA) is one of the most important aspects in the EDFA which the gain is wavelength dependent. For the first time the limitation of EDFA gain optimizing for a 32-channel wavelength division multiplexing (WDM) systems is investigated and reported in this paper. In a 32-channel WDM system the most favorable flatness gain achieved was 23.16±1.51dB with an average noise figure of 5.70dB. This outcome proposes that the method does not achieve a uniform spectral gain in a 32-channel WDM system that incorporates a bandwidth of around 25nm. Based on the simulation results the intrinsic optimization of EDFA causes the poor SNR and peak signal power with great variation over a transmission distance of 480km single mode fiber.