I think you're all forgetting about where the name comes from, who is Prometheus in the Greek mythology?
In the Greek mythology Prometheus steals "the fire" to gift it to mankind, can qonqr be considered "the fire" in this situation? ("The fire" would be the capacity to think, I think)
Prometheus can be considered a symbol of the human quest for scientific knowledge, as well as a representation of the "lone genius whose efforts to improve human existence could also result in tragedy" (according to Wikipedia). In this case, the faceless faction could represent the middle ground between the two extremes (to destroy or to deify it [qonqr]).
Moving on to the faction, the faceless, ones without face, the ones without eyes, mouth, ears, nose and cheeks (I know the ears are not exactly in the face [or are they?] but I'm extrapolating here).
If you don't have eyes to see, a mouth to taste, ears to hear, a nose to smell and cheeks to feel (a touch), what do you have?
Well, according to Plato (yes I am all about Greek thinking here) you have the realm of ideas and the material world of the senses, I won't explain all of this here cause I don't think anyone here wants a phylosophy class but the basic idea is that the material world (what you sense) is an illusion whereas the realm of ideas is where reality lies, where there is the truth in its most pure state.
This basically means that the faceless are a few illuminate people who can "see" what reality actually is, and are above the illusions of the material world.
Or they could be just a group of disfigured fellas with an even more disfigured leader