Generally, the present invention relates to medical devices and a method of vision screening, and more particularly to a pediatric vision screening system and method thereof that identifies a risk factor for amblyopia or diagnoses amblyopia by measurement of microstrabismus. An embodiment of the invention is directed to a method of patient screening for risk factors for amblyopia which includes the steps of illuminating the eye with polarized light, scanning the polarized light about the eye, capturing the retro-reflected light emanating back from the eye, analyzing the retro-reflected light to determine ocular misalignment; and calculating a metric to determine if the patient passes or fails the screening test thereby providing an indication that the patient may have a risk of amblyopia based on either strabismus or anisometropia. The method is effective at detecting amblyopia related to focusing problems without the measuring the focus of the eye directly.