Definitely keep us posted w/your situation IRT the rear fender damage. If they're a customer oriented dealer - they it should get covered. Also, if you FLHX is an 09 - when did your warranty expire...shouldn't if be two years?
I haven't lost a seat screw on the glide yet, but tossed one off my Sportster a few years back - luckily I didn't damage anything. Good luck!