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This paper reports on a study investigating the usability challenges faced by users of Magnetic Resonance Imaging (MRI) tools. In order to understand these problems, observation, shadowing and interviews were conducted with MRI scan users at two centers. After analyzing the collected data, low-fidelity prototypes were created and evaluated. We addressed the usability issues found by proposing a user-friendly and efficient high-fidelity prototype that replaces keyboard and mouse with two multi-touch screens.