It actually really depends on the production year. For a while Missions were getting the 'trickle down' technology from the Cartels, i.e., stuff that was introduced on the Cartels wound up in the Missions 1-2 seasons later.
Some may find the Cartel more comfortable because of the canted footbeds. But in terms of performance there is little/no real difference - in fact, in some respects the 12/13 was more responsive than the Cartel.
For the special models with the new baseplate (or the EST in 2013/14) I'd say go with the Cartels, otherwise the Missions are similar enough that I would not pay more than a $20-30 premium for the Cartels (unless you really want canting).
Last edited by hktrdr; 06-22-2013 at 03:03 AM.