Rent an ozone generator, put top back on, close it up and run the O3 gen inside of it overnight, that will kill anything causing funk smell. Just let it air out for a half hour before you hop in and drive...
I really like this mod.
Have you thought about designing these covers to house two rocker switches?
Take a peak here, 6 posts down..
https://www.jeepgladiatorforum.com/forum/threads/the-best-possible-arb-pump-install-location-ever.30644/#post-502920