This book constitutes the revised selected papers from the 5th International Workshop on Clinical Image-Based Procedures, CLIP 2016, held in conjunction with MICCAI 2016 in Athens, Greece, in October 2016. The 10 papers presented in this volume were carefully reviewed and selected from 16 submissions. Specific topics include various image segmentation and registration techniques, applied to various parts of the body. They range from interventional planning to navigation of devices and navigation to the anatomy of interest. Clinical applications cover the skull, the cochlea, cranial nerves, the aortic valve, wrists, and the abdomen, among others.