Please do another startup log/msq pair without moving the throttle. Your last one indicates rpm is increasing (better Lambda) but then the throttle is moved and we cannot see where it goes naturally. Then it appears to (possibly) enter lean misfire (fuel is reduced 144% from startup to stall), but it's tough for me to tell from that log.
Random stuff: Yes, the LM2940 voltage regulator can become very hot.
You are trying to start in running mode, as your cranking threshold is far below your cranking speed.
You have no Priming Pulse, but that's OK for now. Until you get a solid warm-idle tuned, you can't tune priming, cranking, ASE, or WUE effectively.
Yes you have sync losses while cranking, but it is stable during running, so keep an eye on it but not a primary running concern at this point except with misfires. Stop the misfiring and sync will probably be OK while running.
Watch your AFR numbers but do not trust them in the normal sense - they are only a reference that may be badly offset, or different than expected for your engine or fuel. Tune for best running results no matter what the AFR says, then use that best number (whatever it is) for a new target.
You may consider flattening your ignition timing in the area you are tuning, so it does not change as much, affecting running stability.
Try to stabilize your battery voltage as it is affecting actual fueling, or preferably consider entering better injector dead-time and voltage corrections settings.
You have multiple little un-set or improperly-set values in your TS setup. While it will "run", little things such as those and the random stuff above can drive you crazy when you don't realize you're fighting them while tuning. Find and enter as many correct settings as possible to save frustration.