I don't have loaders and I wasn't crafting any of those recipes. It could be that the save just so happened to be as a vault went hungry or something.
I did do a bit more work and made fixed versions of all the planets in the save that haven't fixed the fuel_categories thing yet, and loading it up with all those fixed mods works.
I did a bit more testing, and it seems like removing certain combinations of other planet mods causes the crash. It looks like removing both Rubia and Panglia can cause it, but not if you do only one of them? Here's the mods modifying the vaults:
https://imgur.com/a/ZIhXdSA (not sure if you can embed images in here)
Well, I guess it works now so ¯(ツ)/¯