I can confirm that regular pokeball lids crafted with cooked apricorns are not able to be used in the crafting recipe for the poke ball itself. This appears to only impact the regular pokeball, and all other types can still be crafted normally. I'll move this on to the internal tracker.
As for the great ball quest issue - that should be in a seperate ticket. It's much easier to keep track of bugs when they have their own ticket, and in case one of these issues is fixed before the other they can be updated seperately. Given recent changes to pokeballs, I suspect the impact is more widespread that just the quest you mentioned.