A system and method for developing customized apparatus for use in one or more surgical procedures is disclosed. The system and method incorporates a patient s unique anatomical features or morphology which may be derived from capturing MRI data or CT data to fabricate at least one custom apparatus. According to a preferred embodiment the customized apparatus comprises a plurality of complementary surfaces based on a plurality of data points from the MRI or CT data. Thus each apparatus may be matched in duplicate and oriented around the patient s own anatomy and may further provide any desired axial alignments or insertional trajectories. In an alternate embodiment the apparatus may further be aligned and/or matched with at least one other apparatus used during the surgical procedure.