there are so many functions in config.inc.php that are
disabled by default.
most users don`t know of them, so put a warning on the
main page when you are logged in as root and functions
are disabled like the query-history, bookmarks,
the "show all"-button in the select-page...
and a link to a page, where you see the most usefull
options that can be changed easily.
Or maybe put an alternate config.inc file in the
download, that has enabled all functionality, so you can
switch to that config right after installing the newest
version (and put a hint to that an the main page too)