What you have is a fungal infection on both the shell and in the eyes. A pet store should sell eye drops to treat the eyes, a few drops per day should suffice.

Water quality and temperature are vital to the successful care of the Fly River Turtle. Water temp 79-86 degrees F and very clean water with a 12 hour day/night cycle will help clear up the fungus. If left untreated the fungus over time this can be fatal to this species.

Truly,

Paul Bodnar