The maintained window can always be scrolled regardless of settings. It's a handy feature - I tend to scroll my constant buffs, pet icons, etc. out of sight to save space since the maintained window fills up quickly (at least on some classes).
I have no idea why your quest helper vanished, but Alt-M works if you disable Options -> User Interface -> "Keep Main HUD Windows Visible" (the game also tells you that).
The stuck hotbar highlighting is a long standing bug caused by SOE. You could disable it completely by editing the graphics file icon_transp1.dds.
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