Now, I've been going with the NCR for the most part. I haven't crossed them, and I am, in fact, listed as Idolized in the reputation window.
However, I just walked into The King's School and was greeted by an NCR MP, who initiated dialogue with me saying something about how I should have paid dues to the NCR and that now I am going to pay for what I had done, then he attacked me. I killed him easily enough, since he only attacked me with a cattleprod, but it was strange that he attacked me in the first place. I didn't lose or gain any karma or reputation for killing him, though now my NCR faction status is only "accepted."
The only thing I can think of for this should still not be possible; When Vulpes confronted me on the strip, I saved the game, reverse pick-pocketed a grenade on him and killed him, but then I thought I'd rather have his wolf hat, so I reloaded and let him live. I only consider this a possibility because when I had killed Vulpes, an NCR trooper was caught in the blast. But again, I reloaded the save and decided NOT to kill Vulpes, so any negative impact for the NCR should have been erased.
I don't want to be wandering the wastes only to be attacked by NCR Rangers at level 6 :/
I should also put that I am not running a single mod for the game.