I Hate Matlab: How an IDE, a Language, and a Mentality Harm: http://neuroplausible.com/matlab via @o_guest -- applies to other tools as well!
It's definitely not the most appropriate first language to teach students for the kinds of pedagogical reasons you touch on.
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I have been concerned for a while by some scientists learning only R, Matlab, or Python+numpy+scipy, and then use it for everything.
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