When navigating between pages, you can see momentarily - unstyled elements of the menu code, instead of the page remaining blank. I managed to grab a screenshot of what you actually see, before the selected page fully loads.

If I don't use strapdown-topbar it does not happen, but adding it has this strange effect.

without topbar

with top bar

Integrate logo.js as a feature instead of having as a separate file.

Noticed that the TOC menu does not collapse once a selection has been made, and the only way to collapse it is to either click away from the menu, or select another menu item.
This is more of a problem when using a mobile device, because if you tap elsewhere on the screen, the TOC menu collapses, but the main menu remains expanded.

make a strapdown-zeta compatible version.
https://github.com/chaitin/strapdown-zeta

Add a final >

http://joedf.ahkscript.org/strapdown-topbar/index.html

<!-- Example: Manually adding a logo -->
<!-- Include it AFTER EVERYTHING -->
<script src="assets/logo.js"></script>
<script src="assets/themeswitcher.js"></script>

</body>
</html

p.s. love the project

Possibly an intergration of this will facilitate this task:
http://vsn4ik.github.io/bootstrap-submenu/
For example: