I would suggest looking at his food and maybe keeping track of what he eats including treats handed to him. And even his heartworm meds etc. It might be swapping to Interceptor from Heartgard would help if the bouts happen when he gets his heartworm med.
You may find he has a food sensitivity perhaps to a treat or to his regular food.
If your regular food has corn, wheat, soy, or beef those are fairly common problem foods. You might try swapping to a food with a high digestibility and an alternative protein and starch source. A food like Wellness fish or rabbit or venison or duck might work.
Or you might try a minimal ingredients food like California Natural Lamb, or just one with no grains such as Innova Evo.
You might also want to check him for tick carried diseases because they can cause all sorts of odd symptoms including diarrhea.
You may want to read about inflammatory bowel disease here
http://www.marvistavet.com/html/inflammatory_bowel_disease.html
Hope this helps you!
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