Don't know what you are doing, but with your mod combination it will only ever generate the 6 angels ores plus gas, oil and thermal. Nothing else, so either there is a big hole, or you modified something by yourself that this is triggered in the first place.

This is a fresh factorio install with ...

Issue created; PR created. https://github.com/Arch666Angel/mods/issues/767

I think I've found and fixed it.

So, that resource - `infinite-gem-ore` - it's not always there.

angelsinfiniteores/prototypes/generation/bob-ore-inf.lua gates the creation of that resource using:
settings.startup["bobmods-ores-enablegemsore"].value == true

At the very least, the code dependent ...

In testing, this issue does occur with 0.9.9 of angelsinfiniteores, but does not occur with 0.9.8.

Yeah, I changed my mind. No idea.

The code used in the angel's mod's data-updates looks like it's copy/pasted and tweaked from bobores, but there don't seem to be any significant differences. As far as I can tell, the resources being updated should already be present - bobores data.lua and data ...

So, based on the current versions of mods, I think I see at least part of the problem.

The object passed by angelsinfiniteores as the "item_in" parameter for bobmods.lib.resource.add_result seems to not be quite what's expected in bobmods.
This function starts at boblibrary_1.1.4/ore-functions.lua ...

When starting up the server to generate a new world, I'm encountering this error:

22.531 Script @__boblibrary__/ore-functions.lua:63: stack traceback:

__boblibrary__/ore-functions.lua:63: in function 'add_result'

...gelsinfiniteores__/prototypes/generation/bob-options.lua:5: in main chunk

[C ...