The invention relates to a method for manufacturing a head hierarchical dissection three-dimensional scanning specimen. The method comprises the following steps: selecting materials; sequentially removing skin, superficial fascia, latissimus jugular muscle, parotid gland, superficial vascular nerve, cap aponeurosis, masseter, periosteum and temporal muscle, opening zygomatic arch and mandible, removing sternoclavicular mastoid muscle, parietal bone of cranial top, frontal bone, temporal bone and occipital bone, cutting to open superior sagittal sinus, removing dura mater, brain, mandible, zygomatic major muscle, zygomatic minor muscle, orbiculus oculi muscle, trapezius muscle, capsid muscle, diabdominal muscle, deorbital horn muscle cheekbone, endocranium, and veins, removing styloid process tongue bone muscles, external rectus, arteries, styloid process pharynx muscles and styloid process tongue muscles, removing auricles, opening temporal bones, and performing median sagittal incision; then, trimming and cleaning the dissected specimen, and pasting specimen muscles, blood vessels and nerves to the original corresponding positions; and finally, combining and processing the 3D scanned images into a complete digital 3D model, so that the scanned specimen is complete in shape and structure, free switching can be realized, and observation and learning are facilitated.