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I definitely felt a deficit spike when I started building nanite research labs and adding nanite upkeep to all my calculators. If I'm correct in my reading of common/strategic_resources/00_strategic_resources.txt , nanites appear to produce 2.5 points of trade deficit per unit imported, just like the other rare resources (living metal, dark matter, and zro). But you're seldom importing tens of units of those other rare resources to single worlds, whereas it's easy to hit a three-digit nanite deficit on (say) a research machine world with just a couple nanite research labs (never mind if you actually build them in all the building slots).
Hmm, I see. Oddly enough my research world was actually generating more trade than consuming, but then again, I didn't build Nanite Research Facility in every single building slot.

District 1: Fundamental Research Nexus, Life Systems Complex, Advanced Engineering Complex
District 2: Network Junction, System Conflux, Alpha Hub
District 3: Research Supply Depot, Data-Driven Theorem Facility, Planetary Supercomputer
District 4: Astral Nexus, Advanced Storm Repulsion Center, Nanite Research Complex
 
Hmm, I see. Oddly enough my research world was actually generating more trade than consuming, but then again, I didn't build Nanite Research Facility in every single building slot.

District 1: Fundamental Research Nexus, Life Systems Complex, Advanced Engineering Complex
District 2: Network Junction, System Conflux, Alpha Hub
District 3: Research Supply Depot, Data-Driven Theorem Facility, Planetary Supercomputer
District 4: Astral Nexus, Advanced Storm Repulsion Center, Nanite Research Complex
My understanding is that trade costs from planetary deficits don't show up in the planet management screen's planet production / deficit section. Mousing over it for my science machine worlds, I see no trade upkeep whatsoever, only production. But it's clearly running a deficit of hundreds of resources, and if I mouse over the Trade icon in the top bar, I see costs from planetary deficits there.
 
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