I dont think its right to suggest any real connection between MxO and the Agency, it seems yet another in an incoming barrage of mmo's that want to label themselves 'action mmo's - which seems to translate as mmos that are dumbed down to the basics a series of loosely connected time sink mechanics functioning for their own sake. Consequently they come accross as bland, generic, lacking any real mood, character or depth, Tabula Rasa and Hellgate are good examples, decent gameplay but really with nothing there to make you care about or feel involved. They are about as unlike MxO as its possible to be and not in any posistive way.
If the hype can be believed - more potential lies in the likes of DCUO and SWKoR, they talk of placing story and character to the forefront much like MxO did in the early days (I dont believe SoE ever understood that and hence why they managed to lose so many dedicated fans along the way). If someone had been around to coordinate MxO's content and story, making sure one didn't go off and damage the other or else wander into and leave the players behind, MXO would probably be recognised as the pioneer of such an approach, an intelligent take on the mmo market.