I'd put come cotton fabric down, or fleece it what i use for mine. I also use carpet but if the sore hocks are at all bad carpet could bother them (though its worked fine iwht my sore hocks bunny). I just use whatever carpet I come across scraps of.
Are her feet raw? Pussy? How much fur is mising about ? (or you could put a pic of it to give us an idea..)
I've put neosporin on my bunny's feet, and that helped. Her feet were pretty bad but after a couple of weeks of close careful care fur began growning back in some, they became less swelled and puffy, and now there's still not fur, but they've been fine for several months.