4.0.5 update has made several changes that I can't live with, but I can only find a few of the config file options. Some, I can't find in the session preferences either.
I did find the most important config option, to make the session cookie last longer than the default half an hour or so.
The next most important config (for me) is the Settings > Navigation panel > Maximum items in branch
Default is 25, I need a lot more.
I can't find any $cfg['xxxxx'] = xxx; option in the documentation (http://docs.phpmyadmin.net/en/latest/config.html) to put in the /phpMyAdmin/config.inc.php file
The config that I can't find in either mode, is to fix the change that now shows "all text" in varChar columns in browse mode (instead of what used to be "Partial text"), causing the rows to be too tall in rows that have columns with more than a little text. I've played with a few Settings options, but none worked. (I can't even manually set it to "parial text" in the browse mode.)
Also the sort order setting that should fix the display of tables correctly where names like table, table0, table01 and table101 sort correctly. I only find one that addresses sort order, but neither setting seems to fix it to display correctly like it did only a short few days ago.