Abstract: Combined with standard mathematical model for evaluating quality of deploying results, a new high-performance parallel algorithm for source pencils’ deployment was obtained by using parallel plant growth simulation algorithm which was completely parallelized with CUDA execute model, and the corresponding code can run on GPU. Based on such work, several instances in various scales were used to test the new -version of algorithm. The results show that, based on the advantage of old versions, the performance of new one is improved more than 500 times comparing with the CPU version, and also 30 times with the CPU plus GPU hybrid version. The computation time of new version is less than ten minutes for the irradiator of which the activity is less than 111 PBq. For a single GTX275 GPU, the maximum computing power of new version is no more than 167 PBq as well as the computation time is no more than 25 minutes, and for multiple GPUs, the power can be improved more. Overall, the new version of algorithm running on GPU can satisfy the requirement of source pencils’ deployment of any domestic irradiator, and it is of high competitiveness.