There aren't many things I would change about Fallout: New Vegas's base game, aside from the obvious things like giving it more development time. One thing I wish the game did better which, as far as I can find, isn't a part of any cut content is meshing Veronica's personal quest with the main Brotherhood quest.
As it is, there are numerous opportunities and disconnects, the most glaring being Veronica wanting the Brotherhood to accept new members, something they resist doing, but they let the Courier join, and you can never discuss that with her. She also has no comments about any of the quests given by the elder (or the option to help replace the elder) even though the casualties suffered by Brotherhood teams and the impending breakdown of their bunker's infrastructure support her points about their survivability. Likewise, the Courier's potentially idolized reputation with the Brotherhood doesn't impact the outcome of Veronica's quest. You can saved them from suffocation, but there's no way to convince them to listen to Veronica.
Veronica can stop being a companion if your Brotherhood reputation drops enough, but it's easy to destroy the bunker without losing her. Possibly via a bug, I started a shootout in the bunker, then let Veronica kill every member one by one while I hid, moving between levels to reset her health whenever they took her down. Even ignoring that unusual option, it's odd how little in-game events impact her. The bunker's destruction affects her ending, but does she know the Courier did it? Outside of the possible reputation drops, she has no reaction to the Brotherhood's collapse.
FNV's biggest strength is accounting for and allowing many possible choices, and there are so many here. Veronica has no idea who destroyed the bunker. Veronica finds out, but after seeing what the Courier can do, she knows she can't win a fight. Veronica is uncertain, and the Courier lies to her. Maybe she sees through it, maybe she doesn't. Veronica knows what the Courier did, but after the paladins massacred the FoA outpost, she's relieved they can't hurt her. Maybe after her personal quest ends in a massacre, she's willing to help the Courier fight the Brotherhood. Maybe she convinces the Courier to sabotage the Brotherhood rather than killing them all. Maybe the Courier convinces her killing everyone is the only way she'll ever be free.
Let me corrupt Veronica. Just a little bit. I know where Christine is and I know she's not over you, Veronica. The Brotherhood is a dead end and you don't need to follow them, Veronica. Stick with me and I'll make all your dreams of a better wasteland come true, Veronica. Do what must be done, Veronica.