A method and apparatus performs peer-to-peer file transfers on a High Performance Computing (HPC) cluster such as a Beowulf cluster. A peer-to-peer file tracker (PPFT) allows operating system, application and data files to be moved from a pre-loaded node to another node of the HPC cluster. A peer-to-peer (PTP) client is loaded into the nodes to facilitate PTP file transfers to reduce loading on networks, network switches and file servers to reduce the time needed to load the nodes with these files to increase overall efficiency of the multi-node computing system. The selection of the nodes participating in file transfers can be based on network topology, network utilization, job status and predicted network/computer utilization. This selection can be dynamic, changing during the file transfers as resource conditions change. The policies used to choose resources can be configured by an administrator.