>>55190890That could be fixed by giving Kangaskhan an obtainable pre-evolution every time you leave Kangaskhan with the pokemon breeder, instead of receiving an egg you receive the joey and it is explained to you that she has become independent and her new baby sister takes her place in the pouch, as happens with kangaroos in real life, with the mother having three children in different states, a fetus in her womb, a baby in the pouch, and a joey at her side for a time.
With Cubone it is simpler, just explaining that this "skull" is an osteoderm that grows naturally and when it evolves it completely fuses with the body, an exaggerated form of the egg tooth in real life. And the myth of the mother is due to the fact that one of the first researchers found a baby next to the remains of her mother and assumed that the mother dies when she gives birth.