As the title states, when I disable my shaders on the nether roof no block are shown other than the hitbox of the block I'm looking at.
with bobby 3.0.1 with shaders

with bobby 3.0.1 no shaders

without bobby 3.0.1

logfile
2021-12-13-3.log

it is caused by the nether fog, this screenshot promped be to get the no nether fog mod which removed the issue

I tried to throw in every mod from your log which I could quickly find on modrinth, yet the nether looks fine for me, with and without shaders. https://paste.ee/p/8xVlE
Can you reproduce this in a new SP world (no portal, just /execute in minecraft:the_nether run tp @p 0 130 0), ideally with as few mods as possible?