Apology from Sqoot: http://blog.sqoot.com/ Seems they were trying to hard and it just backfired. The humor wasn't intended as a negative thing but it's good that they apologize to clear the air of uncertainty.
Exactly. Never attribute to malice that which is adequately explained by stupidity. The social awkwardness of their joke kinda shows the divergent nature of the "brogrammer".
I can see where he was trying to go with the joke (exactly where he said he was trying to go in his equally awkward apology), but once you trip up on a sensitive topic, people immediately arrange themselves to be maximally offended. Once this happens, anything short of a blood sacrifice is insufficient, and woe be to anyone who fails to make a 100% flawless apology!
So for the socially awkward, the result of a failed joke is a bad situation that it's impossible to get out of, because nobody is willing to accept that there exist people who are less than perfect when it comes to the social dance.