i didnt get your question, what purpose you want to run neptune for? neptune is simply an obd1 tuning software, the scale of changes in motor and running functions from neptune depend upon the level of your build, the power you're aiming.
just like crome, ectune etc. hondata s300 does the same.
from your question i guess you're asking about the anti-lag/two step launch control option in neptune?
for a stock motor you can use neptune for making fuel maps, adjust timings, setting afr's, tuning the cam points, setting the vtec crossover point, raising the rev limit (till the safe extant of you respective motor obviously).
For example, like i have my 95 EG civic, which has a fully built B16 turbo, i can set the boost limit, i can set the gear dependant boostcut, i can set the launch control wherever i feel right,i can play with ignition,fuel etc i can add or restrict fuel (by tuning the injectors,setting their duty cycle) so there is alot more you can do like tuning the setup on nitrous etc.