PM algorithm, an unconventional numerical method for initial value problems of ordinary differential equations, is investigated. In order to extend the algorithm to the two-point boundary value problem, the following improvements are made in this paper: Firstly, the separation principle is proposed to transform the multi-objective optimization problem corresponding to ordinary differential equations into several relatively independent single objective optimization problems; Then in the framework of the first order ordinary differential equations, the equivalence of the computational schemes for the I/II type boundary value problems of the second order ordinary differential equation is established; By maintaining the derivative relation and assuming the initial value condition or introducing independent parameters to approximate the initial value conditions, the improved PM algorithms are derived and can solve the boundary value problems of I/II/III types and even mixed type, with the second-order convergence speed.