Agreed, Tim.
The course I learned to play on had tiny greens with falloffs at the back or on the sides. I noticed some of the guys I played with reguarly didn't hit GIR much more often than I did yet they handicaps were 10 strokes lower. It was mostly because they had played there forever and knew how to miss in a spot that left them an easy (and typically none too long) uphill or flat putt. I was forever leaving myself snookered on those tiny, little greens.
Having two holes to choose from would make that really simple. If you put it in a terrible spot relative to one hole, that could very well be Position A relative to the other. On huge greens you'd end up 30 feet from one hole and 50 feet from the other as often as not, no big difference.