A. Whipworms are notorious for creating a bacterial imbalance in dogs GI tract. I would recommend giving a probiotic, I really like Culturelle for this and an antibiotic (I prefer Metronidazole) combination to get the bacterial balance back to normal. Also feeding a bland diet like Purina EN Gastrointestinal or Hill's I/D (prescribed by the vet) can get things back in order.
If all else fails, then I think a second fecal examination is needed, if not already done, to help rule out other possibilities here.
A. I would repeat the deworming treatment in 3 weeks. I would also administer 1 tbsp of plain Greek yoghurt or a probiotic supplement in her food. She likely has a bacterial imbalance. If this does not resolve the issue, I would submit another fecal exam for analysis to ensure nothing is being overlooked.
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