Worldedit or bedwars map regeneration cause lighting not to be updated and enderchests to be invisible

What behaviour is expected:

What you expected to see
My bedwars plugin regenerates the map by saving a copy of the map into storage and repasting it to regenerate it round after round. Worldedit is affected as well, and it's expected to be able to copy and paste a schematic onto the map.

What behaviour is observed:

What you actually saw
The problem with this is that paper does not update the lighting of any pasted blocks that are lighting blocks, and dark spots around the map start to appear where there should be light.

Furthermore, some tile entities such as enderchests are physically there and interactable, but are invisible to the player. This is not a client side glitch, as numerous people have reported it.

Steps/models to reproduce:

This may include a build schematic, a video, or detailed instructions to help reconstruct the issue
Do any large schematic paste into the world using worldedit or use any bedwars plugin like:
https://www.spigotmc.org/resources/screamingbedwars-1-9-1-16.63714/
or
https://www.spigotmc.org/resources/marcelys-bedwars-%E2%96%BA-4-0-%E2%96%BA-supports-1-7-1-16.13622/

When large map operations happen such as //paste or a regeneration of the bedwars map, lighting glitches appear

Plugin list:

A list of your plugins
Worldedit, Mbedwars, luckperms, worldguard, voidgenerator

Paper version:

Paste the output of running /version on your server WITH the Minecraft version. latest is not a version; we require the output of /version so we can properly track down the issue.

Anything else:

Anything else you think may help us resolve the problem

Start by reproducing a large WorldEdit //paste or bedwars map regeneration with the listed plugins, then compare lighting and tile-entity visibility before and after the operation. Done means pasted lighting blocks update correctly and ender chests remain visible to players after regeneration.