Depending on the severity sleep apnea is normally a medical board condition. What did your provider say about you deploying. Medical standards for IA are becoming more strict so your chances are slim for the IA.
Well the navy has a lot of people with sleep apnea. My provider said the navy doesn't have a policy for ships because i can still plug the machine in on the ship. As for IA, from what i was told, it just depends on the location and the living arrangements. I was hoping i could find some kind of instruction though.
This applies only for CENTCOM sanbox (Iraq, Afghanistan) and doesn't apply for shipboard IA or somewhere where there'll be steady, reliable, electricity. Folks have been getting turned away at the ECRCs (where you prep for GSA/IA) for this rule in the past year or two.
None of that neither answers nor helps the OP--I couldn't find anything in the Navy stuff you linked to that refs apnea. It is part of the Med Screen Checklist, but doesn't say anything about actual policy. Which makes sense, since the actual policy is from CENTCOM and not the Navy.
flynavynfo has the goods on this one--we play by the Army rules when serving on the ground in CENTCOM, not the Navy's. There are other issues where the Navy is more lax but the Army will DQ a deploying IA. Back issues come to mind.