They don't take well to being moved while they are sitting, for sure. But once the chicks hatch and you have integrated the ones from the bator, it should not be a problem, as she will want to be wherever her chicks are.
Or you could let her raise her chicks in with the flock. It has its dangers, but it has advantages, too. I've done it several times and have not had another hen kill or even harm a chick, knock on wood. Mother hens are pretty protective; mine have not let anyone else get too close. The roosters actually seem to be helpful in raising the chicks. Then when she stops being a mama in a few weeks, the chicks are already accustomed to the pecking order.