No, they keyboard and message box are clearly on a layer above the speech bubbles. There is nothing wrong with this behaviour.
However, if this is actually happening in some transition, then leave it. We all know that there are only so many hours. Bring some polish to this transition with a future update. I can't see dinging them on design for a slightly sloppy transition.
They did have a nicer one in beta 1 though where the message came up under the keyboard blurred
IMHO, this is the opposite of sloppy.