so uh, Iv'e beaten LLTA twice now and I think i've encountered some kind of bug on my third playthrough.
After beating the Tombstone boss and going in the "it lives" door, into the stomach, then into the door that leads back to the church, then back again because i wanted to go into the stomcach hole. I forgot to ring the bell so i went back, only to end up in some kind of Blue Temple! i progrogressed through it? then ended up in the overworld? like a big empty white 3D area, walked around for a bit and found my Home, went in and i wasn't there? there was just the blue guy without his apple and the player wasn't on screen
I managed to find myself at "The Pit" too by accident via exactly as you describe! When dying in the blue labyrinth area I selected GET OUT in the death menu to get to the white space and then when I descend the pit it crashes every time after 2 seconds (roughly), sadly there is no way to fix the save other than restarting as the pause menu does not work in this section. Escape will get you back to the previous screen if you're quick enough but on that section it also fails to bring up the pause menu. I tried this another time in the next new game I did just to make sure and sure enough, another crash! Pretty sure I am using the latest version of the game too, it says v1.0.0.47 dated 27/01/2018, I downloaded it directly from itch.io on Wednesday (21st Feb).