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 where the key was before IBM in their infinite wisdom moved it in 1986.
Caps Lock as Ctrl will serve most Emacs users for quite a long time, and it's traditionally where the key was before IBM in their infinite wisdom moved it in 1986.