What is a 'vertically aligned USB port?' For that matter, what side of a computer is 'up?' Nothing is stopping anyone from re-orienting their computer in from the way that the manufacturer intended. Not to mention computer cases that are designed to be able to sit both ways. I think that the take-away here is that you don't design a connector that depends on the orientation of the device.
I have a pretty good idea what he means because my computer is like that.
My tower has all the USB ports set up so the long side is vertical. The tower is definitely not made to be laid on its side.
I've cursed in frustration more than once because I couldn't see the place I was trying to plug a USB cable very well and I spent far too long reaching in uncomfortable ways trying to figure out which way the damned cable would go in there without breaking things.
The worst is that a USB cable will sort of fit into an Ethernet port. The built-in Ethernet ports are right next to the USB ports. Lovely, no?