https://youtu.be/H_3CwHPTvkk?t=3131
See the above video at the timestamp. I noticed a bit ago that logistics groups don't show up in cybersyn combinators, and additionally, the window got bugged out and didn't disappear and basically bricked the save, since it even persists on game save/load, and then when you try to open another logistics group, it crashes.
I'm not certain if this is an interaction with pY at all, I can't see why it would be, but I'm playing with full pY and a bunch of other mods too, if it's relevant. You can see the crash-report in the video as well, at 54:21.