Yes, puppies can be born with worms. Some types of worms, such as roundworms and hookworms, can be transmitted from the mother dog to her puppies while they are still in the womb or through the mother's milk during nursing. These worms can be present in the mother dog's intestines, and the eggs or larvae can be shed in her feces, contaminating the environment around her and exposing her puppies to the worms.