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I don't actually see this behavior (in Firefox for Linux) but I do see it in Chromium. Injecting style="overflow-y: hidden;" into the span class="math notranslate nohighlight" that surrounds the mjx-container fixes it in Chromium for me. I'll make a PR.
Just a quick note that I tried to fix the scrolling bug noted in #857 and the fix there also fixed this one as well. Didn't meant to supercede your PR @drammock but just FYI!
Some of the inline equations have vertical scrollbars. This isn't true for all of them. For example:
From: https://pydata-sphinx-theme.readthedocs.io/en/latest/user_guide/theme-elements.html#mathematics
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