For the same controlled process, different controller is radically different in control effect. Aimed at the puzzle of being difficult to select the controller for the incompatibility among control performance index, the paper proposed a sort of improved PSO algorithm. Based on the construction of objective function in multi-performance index parameter, the algorithm could quickly search and converge to control parameter in global optimal extremum corresponded to each controller and single out the controller through performance comparison excellently. In the paper, it took the controller selection of wastewater treatment system as an example, designed the algorithm of multi-modal HSIC controller of DO parameter, made the experiment of system simulation, and the simulation demonstrated that the HSIC controller could be stronger in robustness and better in dynamical and steady control quality compared with improved PID controller. The research result shows that it is reasonable and applicable to optimize selection of controller.