Mats are unnecessary for epoxy. Jack Stands or rolling jacks or engine hoists will not hurt it at all.
However, if you DRAG heavy or sharp objects across the floor, it can scratch.
Epoxy is very tough and durable. I used the UCoat-It system but was not entirely pleased with it. My brother did his garage with the epoxy from http://www.griotsgarage.com/catalog....3080&SKU=90011
and he was very happy with that.
I've got pictures of my epoxy floor and my brother's in my gallery: