The region charged each patient $3,600 for each cornea used in eye operations that help restore vision and reduce pain.
Maura Davies, CEO of the region, says they are very, very sorry.
She says the service is fully covered under medicare and the region's decision to charge for the corneas did not respect the Canada Health Act.
The corneas were imported from accredited eye banks in the United States.
About 120 patients are now waiting for cornea transplants in Saskatchewan, with some facing up to a three-year wait.