The article questions whether Macs in the Apple store will be configured in factory condition (without Flash) or would have flash installed causing possible confusion for buyers. They then go on to state that a Macbook Air they've seen in store did indeed not have Flash installed.
However, one of the benefits of the Apple store is you're generally free to play around with the machines. I've often installed Firefox on these machines, so what's to stop a customer installing flash on the demo machines too. Also some demo machines have MS Office installed on it but you don't hear about confusion from buyers when they find out they need to buy Office separately although I'm sure it happens sometimes.
I don't see the fuss on this issue. There's a plugin out there and it's easy to install, it makes sense for Apple to make Flash opt-in rather than opt-out.
Me, I've installed flash on my Mac and use Firefox and Safari Flash free and I open up Google Chrome (that has its own built in flash plugin) whenever I need flash.
Why don't I use a flash blocker? Because if you remove flash entirely then many sites will display alternative content where the flash used to be rather than an annoying click to play box.