I agree with @razorlab. Here is a datalog from my setup for comparison purposes. CTS turbo, EOS manifold, PI, Reflex, flex fuel sensor, Meth, factory LPFP, Paul Johnson tuned. Note no overboost, no WOT throttle closures, minimal to no timing corrections.
How does your BM3 tune know what Ethanol percent you are running. Do you have your ethanol sensor wired to your Reflex? If so it should be put on can-bus and be available in the tune and the RPM display.
You are running more boost down low with 19.5 deg timing, granted you are on more E than me. Damn that is a lot of timing corrections, is your tuner ok with that?
Do you have a pressure sensor on the LPFP side of the fuel system? Have you datalogged the fuel pressure?
The 80 PSI fuel pressure is what I see too when under load. I have to datalog fuel pressure via the Reflex. There is some pathway where the Reflex puts E% on can-bus for BM3 logic to use. I was surprised not to see it in your log.
Hopefully there is some other explanation for your issues. I doubt a PI injector is stuck on or you would have serious trim and drivability issues.
I am in process of getting my setup remote tuned. My setup is kinda similar to yours, meaning BM3, flex, PI. The tuner I went with, Paul Johnson F80Paul, did more than 3 revisions on E10 pump gas before moving to E30, then E50 tuning where we are at now. There have been so many revisions I lost count. I guess my point is he goes slow and dials in boost/load control and torque limits before going max E%.
I would guess "Stock Turbo Sauce" is the main contributor to the IAT.
All joking aside, 28 PSI on stock turbo and likely stock manifold/intercooler is the reason for the IAT rising quickly. Honestly I believe your tune is the main issue and potentially damaged cylinder 6. How did the plug look? What did your tuner say about all this?