Baking Soda is your friend! I put it in the bottom of my brooders and it really cuts down on the smell. Just sprinkle some under whatever bedding you are using (I used shredded pine).
It took forever to find out if it was safe to use around the babies.
Male Pekins make a lot of noise. They sound like a ratchet that just goes on and on and on and on....
Ilovemyduckies, I hope that's a typo but you just discribed the male pekin duck to be a girl.