State officials say the animals have recovered from the illness.
"Pigs are subject to flu viruses just like humans, so it's not unexpected to find it in a herd," State Veterinarian David Marshall said.
Experts say people cannot contract from handling or consuming pork or pork products. It's likely the pigs caught the virus from humans.
"We want to reassure the public that it is safe to eat pork from swine that have been infected previously and recovered from influenza viruses, including novel viruses," State Health Director Jeff Engel said.
North Carolina is the 10th state with identified cases of H1N1 in animals.