Abstract: A method and system for generating a three-dimensional model of a contact lens with a front and a back surface, in which the entire back surface consists of an array of independent data points shaped to conform to three-dimensional data provided by an ocular topographer. The sampling density is sufficiently high to characterize anomalies or injuries anywhere in the eye to optimize comfort and fit. The methods and systems also include modeling a scleral lens which rests either solely on the sclera, or straddles the limbus extending partially into the cornea is described. The resting surface conforms to the topology of the underlying ocular surface with topology guiding the design. Additional methods and systems model scleral lens optics without the use of trial lenses. The lens models can be used to machine or 3D print a lens that fits the patient. Such lenses benefit patients that suffer from dry eyes or whose eyes are not normally dry, but feel dry after wearing conventional contact lenses.