I don't know what their policies are and if they have changed, but in Fall 2007 after I purchased my Mac in March '07, I was at the local Apple Store and was surprised to see that they did not offer Education pricing for software. At least that was what I was told. It was a difference of $7 and I was a little naive, so I just bought it. Now, I'd just buy it on Apple's site or Amazon (w/free .edu Prime) and save the difference.
I always wondered if they only matched hardware prices, none, or if my experience was just an anomaly