If the boomers can use fuel, why can't the NCR? The NCR own some land in the wasteland.
Does the NCR have access to fuel? Yes, I am rather sure the Vertibirds are not Fusion powered
Spoiler The pres. bird does not go up in a small nuke blast like the cars do when you shoot them.
Could the NCR repair the planes? Odds are yeah given enough time. There are books everywhere odds are high a repair manual could be found if really needed. If not then given there amount of stuff to work with odds are they could figure it out with enough time.
Could the NCR learn to fly the planes? This is where I say no, and all the plans to use the planes fail.
1. They have enough to fix a few planes... sure, but there will be a ton of crashes, and you can only fix so much from scrapped items. I think they would run out of parts before they got a single man up in the air who could actually fly it.
2. The NCR cares more for its expansion then anything else. They would not take the time it would take to fix up, and test flight as many planes as it would need to.
3. Even if they did devote the time morale would plummet amongst the test pilots when time after time all hands on deck would die when the plane did crash during the first stages. Odds are even if the NCR did not care about its losses they would soon find that they ran out of 'willing' pilots.
4. The Boomers...
4.a. Could they use the Boomers sims to learn how to fly? Yeah, but after all you do for them they still don't let you use it. Why would they turn it over to the NCR?
4.b. Could the NCR take over the Air-base? Yes, but they would have to do it in such a manner that would very likely leave the sims in such a state that they would never work again.
4.c. If the boomers where to see the NCR flying planes around do you really think they would not be interested in taking them for themselves? The Fort barely held out to Fiends they could not stop a full scale attack from the Boomers. No matter what we think about the Boomers by the end of New Vegas they are utterly insane, and are just one step removed from Fiends. Do you really think they would be apposed to raiding for more flying machines?
In my book its best that the NCR never dreams of flying those planes. At best they would lose a lot of decent men... at worst they are at the wrong end of a Boomers best friend.