A compressible flow heterogeneous parallel solver based on MPI+CUDA on CPU/GPU heterogeneous system was established. Then different parallel computing models and optimizing methods of compressible flow parallel computing algorithm were discussed. This solver runs different codes with difference resources: the codes which are complex or have low computing density are run on CPU, while the codes which are simple or have high computing density are run on GPU. The heterogeneous systems’ computing results and the efficiencies with homogeneous systems were compared through several problems. Finally, the heterogeneous algorithm was applied to the hypersonic flow. The result shows that the algorithm is robust and the computing efficiency is improved ten times more than that of the homogeneous algorithm.