I think you're going to want to run carbon on the output from your skimmer as well.
Have you read these already?
Ozone and the Reef Aquarium, Part 1: Chemistry and Biochemistry
http://reefkeeping.com/issues/2006-03/rhf/index.php
Ozone and the Reef Aquarium, Part 2: Equipment and Safety
http://reefkeeping.com/issues/2006-04/rhf/index.php
Ozone and the Reef Aquarium, Part 3: Changes in a Reef Aquarium upon Initiating Ozone
http://reefkeeping.com/issues/2006-05/rhf/index.php