Settler (apogean) and farm cards do not apply their bonus if I'm not in the realm.
So if you start a large seeds production in a farm realm, or lumber in a settler realm, then exit the realm to do something else while the machine produces, when you come back later you'll get the normal amount, as if the card is not applied.
The machines announce you the augmented amount of production to come, and if you stay in the realm you'll get the correct amount. Just don't leave while it's producting, which can be quite a while if you craft a large amount.
Industry (smelting ingots) and Alchemist (potions) seems fine.