Hi,
have you ever thought about replacing phpMyAdmin by something different?
Do you know Adminer (adminer.org)? In short it's a awesome small single-file database manager developed by a developer from Facebook. In many ways i find it better than pma. Let's take a look :) Maybe you will like it.
Adminer's maintener contact us few months (years ?) ago to replace PMA in EP.
It really looks a great software, but we can't embbed many database managers and we have to make a choice: PMA. It's more easy for users to install/add adminer than PMA.