I'm not sure how long the dewormer takes but it shouldn't take long. Maybe you should call your vet's offfice and ask them more about it and mention to them what's going on.
Sometimes kittens just need to mature more and grow out of the diarrhea stage. I think it usually takes until they're about 6 months old for their intestional track to become mature. Both of my kittens were having diarrhea but their fecal samples were normal. They were even on some medicine to help them and it still didn't work. I tried giving them pumpkin and rice in their wet food and this still didn't work. Starr's now 7 months old and Pearl's now 5 months old and their stools are getting better but they still have slight diarrhea occassionally and gas too.
Hopefully your kittens will be fine and outgrow this soon. I'm assuming that they're kittens. Good luck.
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