ES,
Right. This cannot be emphasized enough. There is no clearance designation above TS. After that it's all compartmentalized and on a need to know basis. There is no "key intelligence official" who knows all that is going on. There are directors who organize information from a perhaps a few compartments within his/her purview, but certainly not by a long shot every compartment in the military/IC/ or other aspects of govt. Supposedly, those directors then report up to some higher level, but even those information pyramids exist within silos. And of course, transparency is lost at each juncture in the reporting pyramid. Beyond the need to know restrictions, there's the usual turf battles, fights for funding, cover-ups of goof-ups, etc. that one finds in any large bureaucracy. that further obscure the transmitting of clean and accurate info. Someone who is directing, say DIA activities in the MENA, has no more insight into UFOs than you or I. He would have no insight even into far more mundane matters, such as DEA activity in S. America (unless it involved, say, drug smuggling by MENA based terrorists. Then he'd have to be read into the DEA's S. American drug smuggling intelligence program/compartment(s) related to the area of interest to the DIA).
Folks, there is no one in charge. There is no one who has the complete big picture. Anyone telling you otherwise is lying or another loony conspiracy theory propagator. Even POTUS, who technically can declassify anything and have full access, doesn't. In part because he doesn't even know what to ask for and because he's only there for 4 to 8 years and the bureaucracy can wait him out.