The use of microcomputer tomography (micro-CT) for in vivo characterization of bone ingrowth into a scaffold in a rabbit trephine defect was discussed. The configurations of 100% hydroxyapatite (HA) scaffolds were printed and evaluated at 8 and 16 weeks. The scaffolds were 8 mm in diameter and 3 mm thick, with 15% bulk porosity and 20 μm average pore size. Group 1 scaffold architechture contained 50 μm x 500 μm " blind end" channels and group 2 contained "waffle like" architecture. It was observed that Micro-CT images of the scaffolds showed extensive bone ingrowth into both groups at 8 weeks.