Described herein are systems, methods, and software to enhance the management of packet filters for host computing systems. In one implementation, a computing system may identify media access control (MAC) addresses and communication statistics for virtual nodes communicating over physical network interfaces of the computing system. The computing system may further prioritize the MAC addresses based on the virtual network interface ports and physical network interface ports that the MAC addresses were identified on, and generate a filter configuration for the physical network interfaces based on the prioritization and the communication statistics.