In the present study, the effect of low-intensity microwave radiation on rat eyes and the protective effect of some vitamins against the damage induced by microwave was investigated. 32 Wistar-albino female rats were divided into four groups (1 Control, 3 Experimental) (n=8). The rats of first experimental group were exposed to 9450 MHz microwave (2.65 mW/cm(2)) for one hour a day during 21 days. In addition to exposure with MW as first experimental group, Vitamin E and Vitamin C (150 mg/kg/day) were injected intraperitoneally to second and third experimental groups respectively during last seven days of exposure. The eyes of rats were examined daily after MW and sham exposure by an ophthalmologist biomicroscopically. After completed 21 days exposure period the rats were sacrificed under ketalar anesthesia. The rat eyes were enucleated for histopathological examination and Malondialdehyde (MDA) assay. Sero hemoragic dark brown secretion was observed in rats' conjunctiva of fist and second experimental groups after biomicroscopic examination. However, no damage was detected in the third group. Vacuolization, pleomorphism between cells and increasing of cell layers in lens fibers of all experimental groups were observed histopathologically. In the cornea of experimental groups, cellular loss, shape and size differences among cells and lack of polarity were noticed. Slight edema, congestion, desquamation in epithelial cells, separation between layers in some areas and alteration in pigment cells of retina were also determined in experimental group rats. The MDA (Malondialdehyde) levels of all experimental groups increased significantly compared to control group (P<0.05). However, no significant differences among experimental groups were observed at MDA levels (P>0.05). The temperature differences of all experimental groups were found to be significant compared to control group (P<0.05). Finally, it was determined that low-intensity long-term microwave exposure caused histopathologic alternations and lipid peroxidations on rat eyes.