Objective: To treat secondary cone keratopathy after LASIK in three eyes by corneal collagen cross-linking. Methods: Progressive cone keratopathy occurred in three eyes of two patients three and five years after LASIK, respectively. Corneal topography, intraocular pressure, visual acuity, and corneal endothelial condition were examined before treatment. Under surface anesthesia, the corneal epithelium was removed by excimer laser and mechanical methods in both eyes, and riboflavin dextrose solution was spotted on the corneal surface every 3 minutes for a total of 10 times. In one eye, the superficial corneal epithelium was mechanically rubbed with a dry aspirating sponge, and riboflavin dextrose solution was spotted on the corneal surface every 5 minutes for a total of 24 times. After confirming all yellow staining of the corneal stroma under slit lamp microscopy, the cornea was irradiated for 30 minutes using 370 nM wavelength UV light at an illumination level of 3 mW/cm2. After treatment, corneal contact lenses were worn and antimicrobial and hormonal eye drops were administered 4 times/day for two weeks. Results Eyes with excimer laser and mechanical removal of corneal epithelium had 72 hours of corneal irritation; eyes with mechanical rubbing of superficial corneal epithelium had 12 hours of irritation. All eyes had several hours of yellow vision after treatment. Temporary blurred vision and mild vision loss lasted for 1 to 2 weeks. Corneal topography, intraocular pressure, visual acuity, and corneal endothelial count were similar to those before treatment at three months, and there was no further worsening of the lesions. Conclusion Corneal collagen cross-linking is a relatively safe and minimally invasive treatment for secondary cone corneas after LASIK. Preliminary results of treatment in three eyes showed stabilization of the lesions. Long-term efficacy is still under observation.