I am constantly experimenting with my laptop at the track; therefore, what I am about to write may change again. But, it is working really well, right now.
In KManager, I set the rpm window from 3,800 to my shift point (7,200 in the CRX and 8,200 in the Integra). I set the load engagement to 86 Kpa and throttle percentage engagement to 85 (full throttle). This way, I am not spraying during shifts and if something were to go wrong, it will stop spraying. In addition, since I am spraying wet shots and adding fuel in KManager, if the nitrous flow is unstable (for any reason), it will go super rich instantly and I know right away (massive black smoke from the tail pipe and a huge drop in power/torque). In my street cars, I have wideband gauges to help me keep an eye on conditions.
What I change all the time is the mph windows. This will depend on traction at the track, temperature, etc. I start stage 1 at 12 mph until 35 mph and stage 2 engages at 36 mph and up. Basically that means that I use a small shot (65 or 75) in first gear, right after I get off the line. I use the larger shot (125 or 150) coming on in second gear all the way through fourth in the 1/8 mile and fifth in the 1/4 mile. That only works for me on slicks and I run either 24.5x8 or 24.5x9 slicks. On drag radials, all of this is pointless, because all I do is spin. I only spray on the street if I am doing a demo for a customer and that is rare and useless. I literally smoke the tires through all the gears.
Finally, with regard to bottle pressure, the best solution (albeit expensive) is to put a nitrous pressure regulator right before the nitrous solenoid. I run one on my CRX, I set it at 900 psi, and it keeps it there (that is the recommended, optimal nitrous pressure for best results) . You will feel and hear the regulator working at the track! It literally pulses your engine with the nitrous flow as it tries to compensate for the fluctuating bottle pressures. This is disconcerting at first; however, it works great for me! Be careful in winter time, the cold temperatures play absolute havoc on your bottle pressure (I have lost a half a second in the 1/4 mile because the pressure dropped too low on a cold bottle).