What pokemon just doesnt make sense to u?

Kangaskan evidently give live birth while in their egg, because the egg hatches with a mother and a baby.
Breed Marowak and the resulting Cubone shouldn't have a skull helmet, but he does. So something dies in Cubone's egg.

is skeledirge's bird a phoenix that it found? Has it evolved and created a cinder on its head from the hat? Is it also a reference to magic?

Exactly why I stated it that way Mr. History.