My run is uncovered (well, netting, no roof). I use deep litter. Basically it manages itself at this point and composts down the poop (though I do scoop up big surface poops just so we don't step on them). Good drainage, which is key for me, and absorbs bad odors.
My coop has deep bedding with wood chips. Stays bone dry, and the used chips just end up as part of the run after clean outs. My clean out takes me like 10 minutes to empty it out, and another 20 to load chips back in. Not bad for twice a year!
Did you have mites? Pretreating for mites doesn't work as it doesn't kill eggs, you need to treat active infestations. Elector PSP supposedly works very well though, if you do have an infestation.