Would making the handles more rounded (like recent Mac designs) help?
It's from the thinness of the metal at this time, on the current Pro models.
The old plastic cases were great! But they had their own faults. The later designs were good for people with small hands, I suspect, but my medium sized hands were constantly flayed by the case of the main body when I lugged the computer by the handles. It was like a grater shaving off skin from my knuckles.
Apple has the right idea with the handles, and they need to be placed into the design with a minimum of expense, but it would be good if they were somewhat comfortable as well. Not a BIG deal, since it is rare that a floor mac computer is carried around.