A method and a system for scheduling parallel machines based on hybrid shuffled frog leaping algorithm and variable neighborhood search algorithm are provided to solve collaborative production and processing of jobs on a plurality of unrelated batch processing machines. The jobs are distributed to machines based on the normal processing time and deterioration situation of the jobs on different machines and are arranged. An effective multi-machine heuristic rule is designed according to the structural properties of an optimal solution for the single-machine problem, and the improved rule is applied to the improved shuffled frog leaping algorithm to solve this problem. The improvement strategy for the traditional shuffled frog leaping algorithm is to improve the local search procedure of the traditional frog leaping algorithm by introducing the variable neighborhood search algorithm. The convergence rate and optimization capacity of the original algorithm are thus improved.