Hey Brandon.
The NB sensor can provide an accurate tune, but it takes a LONG time. We're talking hours of datalog after datalog. Additionally, you can only datalog the rear cylinder with the stock setup, and guess as to what the front needs.
A WB sensor will allow you to dial into the correct tune at a much more rapid rate, and, since you have the bike apart right now, you could weld a bung into the front cylinder.
The real problem with a NB sensor when it comes to tuning is that it has a very narrow range (as the name would suggest). As a result, you're usually running at the extremes of its parameters, where data gets very dirty and unreliable. A WB, even when running in NB mode, will function far better, and provide much cleaner data. For simple corrections and ECM feedback, a NB unit works just fine. For tuning, it is less than ideal.
The best possible setup for you would be a bung in the front and rear header in equivalent distances from the heads. You would then purchase two Innovate LC-1's with Bosch WB O2 sensors (about $150 each), and hook them into switched power and connectors. You would then datalog both cylinders, alternating which one is plugged into the stock O2 harness. The second option is to only purchase on LC-1, and just swap the WB O2 from the rear to the front bung. This would be a bitch, but it would be doable.
At the end of the tuning process, you would be fine swapping the NB back into the rear cylinder, and selling the two (or one) LC-1 units.
Regarding disabling the sensors long-term, I would advise against this. The corrections are in place for a reason. You should tune your bike for cooler weather, and your home environment. Then turn corrections back on and let your bike do its thing. You can adjust the corrections to better suit your riding style.
Let me know if you have any other questions.
Cheers,
Max