As shown in Len's photo, the cameras have a label that tells you exactly what the card orientation should be. At least, that's true of all of the Nikon bodies I own. I assume it's true of the D4 as well. Why it varies from one body to the next I have no idea, but it's just one more of the things you have to recalibrate your brain for when moving from one body to another -- or learn to play close attention to the labels.
So far, I've only mashed the pins on a card reader, not a camera, so I guess I should consider myself lucky!