Probabilistic Boolean network (PBN) is a kind of stochastic logical system in which update functions are randomly selected from a set of candidate Boolean functions according to a prescribed probability distribution at each time step. In this brief, a pinning controller design algorithm is proposed to set stabilize any PBN with probability one. First, an algorithm is given to change the columns of its transition matrix. Then, according to the newly obtained transition matrix, a fraction of nodes can be selected as pinning nodes to inject control inputs to achieve set stabilization. The problem is challenging since the Boolean functions in a PBN are not deterministic but are randomly chosen among several Boolean functions. Furthermore, the structure matrices of the pinning controllers are given by solving some logical matrices equations based on which a pinning controller design algorithm is provided to set stabilize the PBN with probability one. Finally, the theoretical results are validated using several examples.