Probably fair to call this author error, but this worked before the overhaul of the display math markup.
Make an md whose last line is intertext. For example:
<p>
<md>
<mrow>x \amp =2</mrow>
<mrow>y \amp =4</mrow>
<intertext>Blah blah blah</intertext>
</md>
</p>
This will display fine in HTML, but the LaTeX will not build: this appears to be a case not covered in the XSL, since the closing \end{align*} is never written.
Is it stupid to end an md with intertext? Probably. Is it still a bug? I guess Rob can answer that.