Apart from the textile industry, which are the big supply chains that should be represented in the mod (and including the textile industry, anyone would like to work on supply "trees", ie raw material -> intermediate -> final)
I'd prefer to not add too many resources to the vanilla list on the map, and I will not use DLC/Expansion resources, but a few from the available mods are not excluded, if they are important enough for the supply chain of an industry (thinking of rubber for example and bringing again the need for a resource implantation mechanism from one location to another)
Outside the map (ie not raw material) there is no limit.
There are so many resources to consider, but I've made an attempt to sumarise some important resources (and innovations) for each Era below. Note that this is only a prelimenary list but it should point out some general trends. I've attempted to add some ">" to point out possible resource "stages"/refinement. One suggestion would be to rename the "Wheat" resource to "Cereals" or "Grains", since then it could include species like Barley, Rye, Oats, Sorghum, Millet etc. I've only listed plant resources that are important staple foods today or which had other important uses, like making clothes and sail canvases.
Ancient Era:
Sheep > Wool (yarn) > Woollen textiles (Eurasia)
Sheep > Sheepskin > Leather (Eurasia)
Sheep > Food (Eurasia)
Cattle > Hides > Leather (Eurasia)
Cattle > Food (Eurasia)
Wheat > Flour (Requires grinding) > Bread (this conversion goes for other Cereals/grains as well)
Bananas (Plantains or cooking bananas) - (South East Asia)
Salt > Food conservation
Stone (Tools, buildings, monuments etc)
Forests (feature) > Wooden logs > Timber (construction), Firewood (fuel), Tools
Forests (feature) > Wooden logs > Charcoal (About 50% yield from input, important metallurgical fuel)
Copper ore > Copper (Requires fuel for smelting) > Bronze (Requires 12% Tin and Charcoal)
Cotton > Cotton yarn > Cotton textiles (Clothing, Sailcloth) - (Peru & Indus Valley Civ)
Sugarcane juice (SE Asia)
Coal > Fuel (household use)
Mulberry trees (+ Silkworms) > Raw Silk > Silk textile (N. China)
Not in Civ6
Maize (America)
Potatoes (America)
Soybeans (Asia)
Sweet potatoes (America)
Yam (W. Africa and SE Asia)
Sorghum (NE Africa)
Millet (Worldwide importance, cereals, fodder, alcohol)
Flax > Linen > Linen textiles (Clothing, sailcloth)
Hemp > Hemp fibers > Rope, Hemp textiles (Sailcloth, clothing)
Tin ore > Tin (Requires fuel) > Bronze (Requires 7.3 x Copper input and Charcoal)
Pottery > Glazed pottery, Stoneware etc (Requires Lead/Tin/Salt/Ash/etc)
Cotton (Middle East, China)
Horses - horse archery, cavalry (Eurasia)
Elephants - draft animals and war elephants (India)
Iron ore > Sponge iron (Requires Bloomery furnace and Charcoal) > Wrought iron (Requires a lot of hammering)
Iron ore > Cast iron (Requires Blast furnace and Charcoal) - (China & India & Sri Lanka)
Cast iron > Crucible Steel (Requires Wrought iron and Charcoal) - (India & Sri Lanka)
Rice (New varieties start to make rice more important in China)
Sugarcane > Crystallized sugar (India)
Grains (Like Wheat) > Flour (More efficient grinding by using waterwheels)
Iron ore > Iron nuggets (Waterpowered trip-hammers, more efficient way to crush mineral ores and extract pieces for further processing).
Horizontal windmills (Used to grind grain or draw up water, Persia)
Niter > Gunpowder (Requires Sulfur and Charcoal, China)
Cotton textiles (Imported to Europe)
Wool industry (Europe)
Crucible steel (Technique spreads first to Middle East and then to Europe)
Vertical windmills (Grinding grain, Europe)
Horses > Draft animals (Important for agriculture, replaced Oxen, Europe)
Bronze cannons (Iron too brittle) - (First China, then spread across Eurasia)
Not in Civ6
Cassava (America)
Old-world species brought to Americas (Cattle, Sheep, Horses, Wheat, Bananas, Sugarcane, Coffee etc)
American species brought to Old-world (Cocoa etc).
Coal > Fuel (Deforestation increased demand)
Cast iron > Iron cannons (slow but increasing use of iron for cannons)
Large-scale Charcoal production could reach 90% efficiency (10% loss of input wood).
Not in Civ 6:
American species brought to Old-world: Maize, Potatoes, Sweet potatoes, Cassava
Raw cotton > Cotton (yarn) > Cotton textiles (British inventions increased efficiency of production despite importing the raw materials)
Coal > Coke (Alternative to Charcoal, needed due to deforestation)
Iron ore > Cast iron (Coke-fired blast furnace, England)
Crude Oil > Lamp oil (Increasing demand).
First steam engines (Firewood, Coal) used for pumping water out of mines.
Blister steel (Not cast iron) > Crucible Steel (Huntsman's technique improves efficiency of high-quality steel production, but not enough for artillery).
Whales > Whale oil (Lamp oil)
Coal > Lamp oil (Kerosene, Paraffin, alternative to Whale oil)
Crude Oil > Lubricating oil, Lamp oil (Carbon oil)
Steam power > First Steam locomotives (Transport & Trade)
Coke more efficient fuel than Charcoal (IIRC)
Not in Civ6
Tin (and Lead) > Tin can > Canned food (Food preservation, important for army logistics)
Sand > Glass jar (Requires fuel for melting) > Canned food (see above)
Cast iron > Steel (Bessemer process: Steel finally becomes cheap to massproduce, which leads among other things to casting entire cannons of steel, "ironclad" ships, steel railways & bridges, etc)
Steel cannons were now possible to cast in one piece which allowed effective rifling (Longer range, accuracy).
Cavalry increasingly vulnerable to modern weaponry (Military leadership is conservative though)
Steam turbines > Hydroelectricity (Electricity generation along rivers)
Internal combustion engines invented, which allowed the use of oil to power machinery. More powerful than steam engine.
Not in Civ 6:
Rubber > Vulcanized Rubber (Requires Sulfur, used for bicycle tires etc)
Crude Oil > Motor oil (Exceeded Kerosene as predominant commercial end-use for Petroleum)
Aluminum increasingly demanded for airplane construction
Coke and Petroleum reduced/supplanted the need for Wood fuels (Like Charcoal).
Not in Civ 6:
Vulcanized Rubber > Vehicle tires (Increased demand for automobile industry)
Oil quickly overtakes Coal as world's foremost fuel
Uranium ore > Yellowcake > Nuclear fuel, Enriched Uranium