I'm not sure which ECM the LS3 is using, but EFI Live has a new custom OS for the E38 that allows you to run secondary tables (for E85 or NOS or whatever). You install a simple switch to toggle between the tables - it's based on flex fuel cals except you manually control the switch between tables (tunes).
I don't think you're going to see a big difference in performance. I think you need to be at 12:1 compression before you'd see the benefits of 85% alcohol. Plus, being at 5,000 elevation, I don't think detonation is going to be a big concern.
Out of curiousity, how much timing does the factory tune give the LS3?
If you're going to open up the ECM, you're going to void the warranty. With that being the case, I'd just have the car tuned locally. A friend just put headers, full exhaust (no cats), and a mail order tune in his LS3 C6 and it ran 119mph in the quarter. I thought that was great for so little work to the car.
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