When I make a mod do I have to do anything with the graphics options or does that just depend on whatever my options are set to when I play New Vegas?

The graphic settings will be set to a low threshhold for easier rendering and movement in the render window. You shouldn't need to mess with any of the settings. Once you make a mod it will use whatever graphic settings the player has on THEIR computer.

Do you mean in the geck? Everyones geck renders at the same, somewhat low quality. Nothing you can do (as far as I know) can change those. Don't worry about them. The actual ingame render is entirely dependant on what each person has their game set too.