Not always. I was NPQ'ed from flying for the AF and the navy gave me a pilot slot. Just depends on whats going on. The navy needs NFO's, and can give a medical wavier for just about anything. Get in and talk to a recruiter, see if you can get ahold of somebody at NOMI in Pcola. They have the final say for all medical matters.
Were you NPQ'ed from just flying or enlistment completely. I've been NPQ'ed completey no enlistment no nothing.