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A timeout before anything happens is almost always a sign that MathJax
couldn't load the configuration file successfully. This is frequently
(and I think in your case) due to the following misconfiguration (cf the documentation on local configuration with the CDN):
A configuration file must always end with something like
MathJax.Ajax.loadComplete("local/local.js");
The link structure in that line must match the link structure with
which the configuration file is called.
I can't check more right now, but if this doesn't work, play around
with the link structure a little (try changing the folder structure or
switch to absolute links)
Let me know if this helps.
Peter.
PS: For me it uses locally installed fonts just fine right now so I
can't reproduce those issues.