Towards Efficient HPC Systems for Agents: Challenges and Opportunities

Abstract: Coding agents have become real users of high-performance computing (HPC) systems, yet today's HPC abstractions, interfaces, and policies remain designed for human-driven workflows. In our measurement, users running coding agents are only 19.5% of the observed population, but account for 55.8% of job submissions, 29.1% of CPU core-hours, and 42.7% of GPU-hours. Agents are not simply faster humans. They issue commands at 20.8x the human rate, decompose work into fine-grained explore-modify-execute loops, and pursue open-ended goals through trial-and-error campaigns that continue through nights and weekends. These behaviors strain abstractions built for human timescales, surfacing as control-plane pressure on the scheduler, metadata-intensive I/O on bandwidth-provisioned filesystems, repeated rediscovery of what earlier sessions already learned, and new prompt-injection and policy-enforcement surfaces. Neither banning agents nor treating them as ordinary users is sustainable. We instead argue for co-design, that facilities should treat agents as first-class principals where agents become facility-aware tenants. We outline the resulting challenges and opportunities in compute, storage, agent memory, and safety.