In this paper, we investigate the optimal design of phase modulation waveforms using the theoretical model of Tm3+-doped fiber amplifiers. The proposed design suppresses the SBS effect in the 2 μm-band Tm3+-doped fiber amplifiers with the help of a reference point-based multi-device non-dominated sequential genetic algorithm (NSGA-III). At the same time, synthesis efficiency is ensured. Different from the previous use of conventional multi-objective genetic algorithms to suppress the SBS effect in narrow linewidth amplifiers in the 1 μm band, the maximum SBS threshold is 121 W at a signal linewidth of 496 MHz with a more uniform distribution of Pareto solutions under this scheme. The signal linewidth of 680.61 MHz increases the SBS threshold by almost 20 W and the operating speed by several times compared to a conventional multi-objective genetic algorithm at different modulation depths, modulation frequencies and modulation periods. The threshold enhancement factor of the SBS signal with optimal modulation is 2.12 times that of the sinusoidal signal with an extended bandwidth of 700 MHz. The 2 μm laser obtained by this scheme enables more accurate and longer distance ranges in coherent detection.