For the record, I like the Khan Academy and they do a lot of good; but I still think that's really unfair to say that given that the article brings up a really important point (regardless of its style of writing): Khan Academy history lessons are so abbreviated, that key, important points and figures in history are skipped. Why is this not good? One of the major key reasons we study history is so that major mistakes of the past are not repeated in the present or future. Now this is an extreme example that no Khan like outlet actually does, but what if they skipped over Jim Crowe laws in their history of the US?
Going on somewhat of a tangent, reading this article reminds me of this TED talk about filter bubbles.
http://www.ted.com/talks/eli_pariser_beware_online_filter_bu...
Essentially Khan Academy and other ventures like it, may be inadvertently creating dangerous filter bubbles.