Yeah that's the basics.

My general idea is basically a seemingly, but not actually, rogue group in the government doing a lot of the bad not very nice things that such groups usually do in comics.  Think like S.H.I.E.L.D. when they're being shady, or the Weapon Program, or the Friends of Humanity/Purifiers from X-Men.

Was thinking of getting into some of that when I was RPing 60s Capt. A and it's still an interesting idea to me.  A group that absolutely believes they are doing the right thing for the country and are basically willing to stretch the concept of By Any Means Necessary.