Despite its advantages, MRM has some limitations. One major challenge is the requirement for high magnetic field strengths to achieve micrometer-scale resolution, which can be expensive and technically demanding. Additionally, the acquisition time for high-resolution images can be quite long, making it less practical for high-throughput studies.
Moreover, while MRM excels in visualizing soft tissues rich in water content, it is less effective for tissues with low water content, such as bone. This limitation can be addressed by combining MRM with other imaging modalities like X-ray Microtomography.