What are you feeding? This is going to sound ridiculous ''my dogs poop doesn't stink" LOL! JK -- but it is not that bad anyway. They have firm little tootsie rolls that don't have a strong odor. I get more of a pee smell from my garbarge than I do poop. I make sure to take it out at least once a day. Make sure you are feeding a premium food. Some even will advertise "low residue" "low odor" etc.... Canidae, Royal Canin, and Solid Gold Wee Bits have all been good about this for me.
You could shake the poop into the toliet & flush to help except for the diarrhea you mentioned before. Then it is pretty much a tie in the bag and get rid of it situation. Maybe you could sprinkle something on it -- baking soda, kitty litter (the chlorophyll kind), spray good with fabreeze, just grasping at straws now.
What do you know -- I just bing'd for "what to do with smelly puppy pads" and found this:
http://www.drsfostersmith.com/produc...m?pcatid=21474 Looks like just what you need.