Yes, the application of riboflavin drops and ultraviolet light is generally safe for the eyes. Riboflavin is a non-toxic substance that occurs naturally in the body and is frequently added to food and supplements. The ultraviolet light exposed to the eyes during crosslinking is equal to or less than what a person would be exposed to during a day in the sun during the summer.
Serious side effects in response to riboflavin or ultraviolet light are very rare.