Ok, I just installed 3.1.1 of Helix Native, and was able to move back to native M1 application mode for Logic Pro. I did have to futz a little bit with the plugin manager to disable, then re-enable it, and it wasn't obvious on the Logic Pro plugin manager to me to tick the 'Use' checkbox to turn it back on, but it is nice and fast and responsive as a plugin UI, and works great so far in my limited testing.
Nice job, Line 6. Will post if I run into issues but man, the M1 Mac is a mons