I have one in my car now and was wondering if I would be better off with the stock chip? Couldn't I just bump up the timing a little bit to compensate? Also I plan on getting nitrous later this year.

 

I don't know exactly what the hyperjunk chip has thats different than stock, but i'll bet it's not necessarily good. At best it's just a little extra timing here and there, and maybe changed TCC lock-up points.
All i can tell you is do some TnT at the track with both stock and hyperjunk and do some timing and FP tweaking too and see what works best.