How have the stools been since?
Occasional loose stools can still very much mean he has chicken allergies or sensitivities. I would stop feeding chicken altogether for a month, to test his senstivity. Aren't you also feeding cottage cheese though and other things?
And, what about treats?
Also, as has been mentioned before - if you're feeding more than 15-20% homecooked food, you're throwing the calcium-phosphorous ratio out of balance - so this also may contribute to his upsets.
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