I am in the process of integrating the Mystical Agriculture crops into the "bonsai trees" mod. Everything works as it should, except that the essences do not drop for Inferium Crops tier 1-5. When troubleshooting I noticed that the /give command also doesn't work for the essences, with the error "There is no such item with name mysticalagriculture:inferium_essence"

You have to use the item ids. IIRC inferium is mysticalagriculture:crafting with a meta of 0 for example. Use f3+h to see them.

That worked beautifully. Is there a reason you set those 5 plants up that way instead of using "inferium_essence" etc like the rest of the essences? These 5 are the only ones that have to be called as a drop by "mysticalagriculture:crafting" with meta 0-4 rather than "stone_essence" or such.

Back when I made the 1.12 port I figured I would consolidate a bunch of ids. Didn't really need to do that for items to be fair but its too late now. Glad you got your stuff working