Depends what you want from it
24/7 box thats just going to be a media/DL box then I would just stick a XBMC live image on it (can run Sick Beard, Couch Potato, SabNZB as addons for all your DL & sorting needs) but if your going to want it doing other things then maybe a full Ubuntu / Windows install running the media program on top (which will be slower but on the CULV chip not by that much).
As for Boxee vs XBMC all I can say is try both and see what you prefer. I tried boxee, it had more things out of the box, was easier to setup, harder to modify, good media scrapers, looks good out of the box on a large screen far away.
XBMC is harder to setup, crap internal scrapers, looks better after personal tweaking, larger addon community, runs better on the low end.