An automated imaging pipeline was developed and validated to handle the management of MR image spatial accuracy with a focus on applications for radiation therapy (RT). Protocol enforcement was implemented to accept/reject datasets based on expected clinical sequence parameters. System and patient related image spatial distortions were quantified using numerical simulations and measurements. Vector field maps were rendered and stored for automatic filtering and correction of patient MR images. Data and process monitoring was enabled via a web application. The imaging pipeline was deployed clinically to automatically validate patient image data required for RT planning and in-room MR-guided treatment delivery.