Are children considered disobedient to their father, even though they previously wronged his wife, and now they are obedient to both him and her, but she still creates problems and prevents them from maintaining kinship ties?

What you are enduring in terms of patience with the abuse and injustice from your father and his wife, along with your repentance for a past mistake, is your duty, due to the immense right of a parent. Allah has enjoined kindness to parents with His worship, forbidden even saying "uff" to them or scolding them, and commanded honorable speech towards them and lowering the wing of humility. Filial piety is among the most beloved deeds to Allah, and disobedience to parents is among the gravest major sins. So strive to be kind to your father and his wife, and seek reward from Allah if you encounter harshness from them, for you are feeding them ashes and Allah remains your helper.