@Maroon_e90
I have a ST 6466 at 700 rwhp (auto tranny) at 30 psi boost and 7.9 timing. Fueling is 93+boostane+methanol. My calculated octane is about 101 octane. Try boostane. It is a miracle. Mix 1 can with 1 tank of gas. It will bring 93 octane up to about 98 or 99. 1 can is about $20. See if it solves your problem.
On full e85+boostane+methanol my boost/timing is significantly higher. I'm still dialing it in and DocVu is tuning the car. I dont want to share numbers yet because it is still in flux.
A built motor can cause false timing issues. You will notice it in cyl 2 and 5 (center cylinders closest to the sensors). Your timing drops look real to me, but I'm no expert. Your tuner can dampen the sensors in the tune. But that has some risk if it is real. Or you can add potentiometers to the sensors. I believe that many (most?) People with a built motor and a ST require some sensor dampening, the harmonics are changed. My tuner does have some dampening in my tune.
When I switched from 93 toe85, at the same piwer level. I also had some timing drops, only in cyl 2 and 5. I learned that my driveshaft center bearing bolts were a bit loose and a heat shield was tapping my exhaust. I believe this noise carried into engine... My theory... Once corrected, the timing drops on cyl 2 and 5 stopped.