The mother will eat of the sack that the puppy is in then move it to a suitable area. The mother in days time may step onto a pup. This is completely normal.
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Well it really isn't possible for a mom dog to eat her puppies but a way is to keep them in separate cages.
You don't! Leave them alone, and let their mother take care of that. She knows when the time is right. Never prevent a puppy from nursing.
Eat her babies? I do not think a mother rabbit will do that! It's her babies. Why would she eat them?