Nope. Some dragons like Mirmulnir like to stick their bones in really ugly places. http://i28.lulzimg.com/cf94e884fc.jpg
This is really my only complaint about them. Like destroyed Oblivion gates, they never go away. But unlike Oblivion gates, these skeletons end up in very inconvenient places. I hope Bethesda takes them on in a future patch. Surely they thought of that. What I do right now is save the game before dragon fight and make sure they don't wind up in some crazy, stupid location, like right in front (or through) a main city gate.