You don't need the python-markdown-mathjax extension
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rmcgibbo commented
Just put the javascript that grabs mathjax from the cdn right in the jinja template, base.html.
<!-- MathJax support -->
<script type="text/javascript"
src="http://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML"></script>
<script type="text/x-mathjax-config">
MathJax.Hub.Config({
tex2jax: {inlineMath: [['$','$'], ['\\(','\\)']]}
});
</script>