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A navigation system combines preoperative and intraoperative surgeries that are offered to minimize risk of damage to patentspsila anatomic structures. This paper analyzes two different navigation approaches: a computerized tomography (CT) marker based approach and a conventional non-computerized tomography marker approach. This study provides advantages and benefits of the CT marker based approach. 3D coordinates, frame description, homogeneous transform, and kinematic equations are calculated and displayed in a GUI. Results show that the CT maker based approach are not statistically different from conventional approaches and thus viable to perform intelligent dental navigation.