If you are seeing him eating his own stools, for which there are as many reasons put forward as cures (and i've tried them all!!) I'd be looking at his diet. Cereal-based food is more likely to go through not properly digested. And so still 'appealing'. The breeder should be advising you about diet, much as the two I have bought in since losing the last of our bloodlines, came on food I'd not normally use. I finished the bags they came with however but then towards the end of the bags, gradually switched to something I felt happier using. Food that wasn't cereal based but which listed meat or fish as the main ingredient. Also the best way to stop all this stool eating is to PICK IT UP as soon as it arrives. Honestly.
I have never, other than with out first and that wasn't really raw feeding, felt comfortable enough to raw feed - and when our numbers increased, it really wasn't viable, especially once overseas. With a puppy I tend to prefer using a good quality puppy food, in the hope that 'it's all in the bag' as needed by a growing puppy. And I'd not feed raw and complete.
I have no experience with antibiotics causing stool eating, or an abnormally increased bad smell. And ditto with a good quality dry food. You could and maybe should add a little natural unflavoured yogurt to his food, which is something I have always tended to do when mine are on antibiotics.
Has your vet ordered a fecal test - and if so, did he test for protozoa - eg. Giardia?