There's no contradiction in saying don't use javascript, use something that compiles to javascript. It's exactly the same as saying don't use C, use something that translates to C (i.e. C++ once). As for his example being anecdotal, almost all code snippets posted in a blog post can be attacked for that, and while it might be valid, it is pretty much impossible for the writer to give _any_ negative example without it being dismissed as "bad code is bad code" etc.
When combined with the assertion that "JS is the browser's assembly language", one can't quite say it's identical, because C isn't the OS's assembly language. Assembly language is.
