The word γλαυκῶπις shares its root with γλαύξ, the word for owl.
Owls are known for their large and distinctive eyes, which are adapted for low light hunting. Thus, I believe the epithet is a comment on Athena's perceptiveness, telling us that the goddess of wisdom can see even through the dark.
You may find more information on Athena's association with owls in Wikipedia.