It depends on your needs. When I was younger (ok, a LOT younger) it was no big deal cleaning out the coop. Now that I've had spinal fusion and bending over at all IS a big deal I LOVE my "poo pits" as you call them. My coop is raised up off of the ground by 2.5 feet and when it is time to clean the coop I just scrape it into buckets that are waiting under the holes (I have 2 so I don't have to go very far). I use the deep litter method and use untreated garden mulch (no herbicides) for the litter so that everything I gather from my girls goes back into the gardens. However if you are not a gardener and you have a strong healthy back then why bother? I cannot believe how much easier my "back friendly" coop has made my life and I enjoy my gals so much more now than I ever have in my life (including when my back was strong and I thought it was "no big deal" to bend over to clean the coop, gather eggs, water and feed...)!
BTW, it wasn't very hard to design trap doors with wire mesh over the holes to keep out predators and the pay back has been huge! But hey, if a little extra work now, to save repeated work in the future, doesn't appeal to you don't do it! Oh, and the deep litter method avoids above mentioned problems.