I agree that is quite annoying when you have large windows open taking up space so you can't click anything. It is not something that is hard to fix though. Right click the window and make sure it is unlocked, sometimes it is easier to find the edge of the window if you set the background opacity down a little bit.
The bar above health/power is one of my favorites, you can set it to show runspeed (by changing no frame/titlebar or whatever in right click) so you can see at a glance if you are wearing your j-boots right now, or if you need to re-buff your sow or runspeed totem.
I don't need the bottom bar either, but there are a lot of great features in here once you get used to it.
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