Wow, what a messy situation. If you intend to keep these hens, putting them in your coop, seperated by chicken wire is a good thing. Just leave them there for a few weeks...let them see each other...but not fight. Eventually they will mingle..there might be some pecking, but it will all settle down pretty quickly. If you plan on sending them back home....rake out the wet straw...and put some stall dry down...after you seal up the walls. Let that sit in there a few days...then rake/till it in...add more stall dry...then fresh straw. The old wet straw will mold fast, and cause health problems for the flock. Good luck on whatever you decide.