"Come Fly With Me" quest is bugged, but it is not the end. This quest is a link quest to the main story line quest, but fortunately there are many other ways of getting the quest done.
So here's the work around, which I've tested.
First alternative, you can kill MANNY, and pick up his holotape, which will lead to discovery of BENNY's location, and most likely "come fly with me" quest will be gone. It is noted that this manner, has led to a graphic bug as well, causing the screen to be very blurry, thus the need to reload a previous save game after all.
Second alternative, you can go to MANNY's house and access his computer terminal. It's a bloody email only, simple click and the quest is done. If you have taken the "Come Fly with me" quest, it will still be open for completion, but in order to not activate the bug, probably won't temper with it just yet. You will be able to get BENNY's location, no karma gained, and "Come fly with me" quest still available.
Third alternative, is to bypass all in NOVAC, and go straight to BOwler city, snoop around and you'll find something.
So yeah, here you go, on overcoming the "quest corrupt" bug.
