Effective preoperative planning requires accurate algorithms for segmenting anatomical structures across diverse datasets, but traditional models struggle with generalization. This study presents a novel machine learning methodology to improve algorithm generalization for 3D anatomical reconstruction beyond breast cancer applications. We processed 120 retrospective breast MRIs (January 2018-June 2023) through three phases: anonymization and manual segmentation of T1-weighted and dynamic contrast-enhanced sequences; co-registration and segmentation of whole breast, fibroglandular tissue, and tumors; and 3D visualization using ITK-SNAP. A human-in-the-loop approach refined segmentations using U-Mamba, designed to generalize across imaging scenarios. Dice similarity coefficient assessed overlap between automated segmentation and ground truth. Clinical relevance was evaluated through clinician and patient interviews. U-Mamba showed strong performance with DSC values of 0.97 ($\pm$0.013) for whole organs, 0.96 ($\pm$0.024) for fibroglandular tissue, and 0.82 ($\pm$0.12) for tumors on T1-weighted images. The model generated accurate 3D reconstructions enabling visualization of complex anatomical features. Clinician interviews indicated improved planning, intraoperative navigation, and decision support. Integration of 3D visualization enhanced patient education, communication, and understanding. This human-in-the-loop machine learning approach successfully generalizes algorithms for 3D reconstruction and anatomical segmentation across patient datasets, offering enhanced visualization for clinicians, improved preoperative planning, and more effective patient education, facilitating shared decision-making and empowering informed patient choices across medical applications.