Any small spaces they could be hiding in? Last month I came out to the coop a couple of times and something had terrified my chickens enough that they hid in any space they could find. Normally if they hear the rooster warning they just run for cover but these times they were literally jammed into every nook and cranny. We have a couple of smaller "coops" outside in the run that we used for mama hens/chicks and most were hiding there, or in the nesting boxes inside the main coop. A couple I found jammed into a small space behind one of the little coops and a fence. I would have never spotted them but I was trying to see if I could find any predator tracks in the snow and saw a small pile of feathers. Looking around I spotted the tip of a tail. Poor girls had melted snow dripping on them so I'm glad I was able to find them before nightfall.  If you can, get out there and check every small space they could be hiding in. Best of luck, it is absolutely heartbreaking when something like this happens.