Learning facts don't make anyone knowledgeable of science. I think what really means is that your regular software writer (and CS bachelor, IMHO) has no contact whatsoever with the scientific method and with how science actually works. That is, they are unaware of how to develop an hypothesis, test it against experiment, place the phenomenon under a broader context, etc.
A really simple test to see if someone has at least a minimum understand of how science works is asking them about what a theory is. I've seem plenty of college educated people think that, say, Theory of Relativity and Theory of Evolution are mere guesses that haven't still been properly verified and one have not only the right, but the moral obligation to chose whether to believe them or not based on their on personal logic. Actually, most people say things like "this and that haven't actually been proved by science", thinking that there are actually "proofs" of anything in science.
I disagree with how they picture Nye's position as a prominent science educator, but his opinion is right on the dime.