I'm so sorry about the baby bunnies.
Yes, cats definatly have the potential to see rabbits as prey and attack them, especially small defensless baby rabbits.
If your rabbit is killing her babies by sitting on them and isn't feeding them properly herself I really don't suggest you breed her again. You don't want to set yourself up for heart break again, and it's really not good for the female to keep having babies anyways.
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