Earlier quoted context omitted.
I don't think focusing on hitting Ctrl on one side or the other is the problem -- it's the awkward contortion your hand has to make to hit the key, pinky or otherwise. It's in the same bad position on either side on a standard IBM PC 101 and later keyboard layouts. You'll just end up hurting both your hands if you alternate. Caps Lock as Ctrl will serve most Emacs users for quite a long time, and it's traditionally w…
OP already said that you dont have to use the pinky to hit the keys. I find the palm of my hand is nice for the right control key and the last knuckle of my pinky is nice for the left one (respectively on the appropriate hands). And my hands aren’t ruined yet.
I'm of the opinion if you're regularly pressing keys on the keyboard without using the tips of your fingers and/or thumbs you're doing it wrong.