Don't know that real knock would be realized across the entire RPM range, I've done quite a bit of datalogging and really haven't been able to catch any consistent knock retard.
As far as tuning for a cold air intake, you may need to add a bit of fuel as the extra air being sucked in can cause the engine to run slightly lean.
As far as tweaking your 93 octane tune, every time you make a change datalog with Long term (LT) Knock Retard and Short Term (ST) Knock Retard as well as RPM so you know where the problem areas are. I believe that any number of long term knock retard is bad and more than 5 in short term knock retard is bad but I'm not sure of this.
In my experience I've been content at keeping both sensors at 0.
Also in my experience I've found that Shell 93 octane is the best for tuning and allows the most added timing.
theres really not that much "extra air" to where you adding fuel would be an issue. its just an intake, not a supercharger. the cam still has the same lift and timing, the intake ports arent enlarged and most are still running the stock TB. intakes basically smooth out airflow and allow the engine to take the air in with LESS work, thus producing more power. think of sliding on smooth concrete, then putting oil on same concrete. takes less force to pull something across or slide across.
diablo has mentioned that before, which is the reason why the v6's dont have CAI tunes like the v8's do. thats according to them, not i. its also on the diablosport forums on their website. if i remember right, the only mod they've advised adding fuel on was headers... and that was the upper rpm ranges.
before anyone starts tweaking and tuning though, i think its better to suggest that they datalog first, which most here have done, and then see what needs to be added or reduced.
my advice, try the diablo sport forums, sign up overthere, and post away. or email johan.