Translated from here.

	Vegetable Seeds	Grain Seeds	Herb Seeds
Earth Yellow Rock	シモカブ	Tarutaru Rice	Black Pepper Carnation
Lightning Purple Rock	Wild Onion	Coral Fungus Margeurette	Sobbing Fungus Mhaura Garlic
Water Blue Rock	La Theine Cabbage	Blue Peas	Bay Leaves Margeurette
Fire Red Rock	Popoto	Tarutaru Rice	Kazham Peppers
Ice Transparent Rock	Saruta Cotton	Kukuru Peas	Sleepshroom Chamomile
Wind Green Rock	Ghysel Greens	Millioncorn	Sage
Light White Rock	Ginger	Sunflower Seeds	Mhaura Garlic
Dark Black Rock	Screaming Fungus Ginger Woozyshroom Deathball Coral Fungus	Tarutaru Rice Coral Fungus Deathball Woozyshroom	Deathball Bay Leaves Screaming Fungus Coral Fungus Amaryllis
None	Woozyshroom Yellow Rock Lilac Rain Lily	Puffball Red Rock Margeurette	Carnation Green Rock Sobbing Fungus Amaryllis

Fruits chart
2 Crystals, first is the default.

↓#1/#2→	Earth（Yellow Rock）	Lightning（Purple Rock）	Water（Blue Rock）	Fire（Red Rock）	Ice（Transparent Rock） ＃May be Purple	Wind（Green Rock）	Light（White Rock）	Dark（Black Rock）	None（Blue Rock）	←#2/#1↓
Earth	Eggplant	San d'oria Carrot	Eggplant Watermelon	San d'oria Carrot	San d'oria Carrot	San d'oria Carrot	San d'oria Carrot	San d'oria Carrot	San d'oria Carrot	Earth
Lightning	Derfland Pear	Coral Fungus	Coral Fungus	Derfland Pear	Derfland Pear	Derfland Pear	Derfland Pear	Derfland Pear	Derfland Pear	Lightning
Water	Watermelon Eggplant	Thundermelon	霊芝 Watermelon	Watermelon	Watermelon	Watermelon	Watermelon	Watermelon	霊芝	Water
Fire	Yagudo Cherry Saruta Orange	Yagudo Cherry Saruta Orange	Yagudo Cherry Saruta Orange	Yagudo Cherry	Yagudo Cherry Saruta Orange	Yagudo Cherry Saruta Orange	Yagudo Cherry	Yagudo Cherry Saruta Orange	Yagudo Cherry	Fire
Ice	Mithran Tomato	Mithran Tomato	Buburimu Grape	Mithran Tomato	Buburimu Grape	Mithran Tomato	Mithran Tomato Faerie Apple	Mithran Tomato	Mithran Tomato	Ice
Wind	Rolanberry	Rolanberry	San d'oria Grape	Rolanberry Saruta Orange	Rolanberry	San d'oria Grape	Rolanberry	Rolanberry	Rolanberry	Wind
Light	Faerie Apple	Faerie Apple	Faerie Apple	Faerie Apple	Faerie Apple	Faerie Apple	霊芝 Faerie Apple	Faerie Apple	霊芝 Faerie Apple	Light
Dark	Yagudo Cherry Saruta Orange	Yagudo Cherry Saruta Orange	Danceshroom	Yagudo Cherry	Yagudo Cherry Saruta Orange	Yagudo Cherry Saruta Orange	Yagudo Cherry	Danceshroom	Danceshroom Deathball Yagudo Cherry	Dark
None	Derfland Pear	Derfland Pear	Watermelon	Derfland Pear	Derfland Pear	Derfland Pear	Derfland Pear	Derfland Pear	霊芝	None

Tree chart

↓#1/#2→	Earth	Lightning	Water	Fire	Ice	Wind	Light	Dark	None	←#2/#1↓
Earth	Iron Nugget		Crawler Silk	Crawler Silk			Crawler Silk	Crawler Silk	Bronze Nugget Gold Beastcoin	Earth
Lightning	Yagudo Feather 宿木	Silver Nugget	宿木 Shell Bug Silver Beastcoin	Yagudo Feather		宿木	宿木		Bronze Nugget 宿木	Lightning
Water	Crawler Silk Mythril Beastcoin	Mythril Beastcoin Silver Beastcoin Shell Bug	Mythril Nugget		Shell Bug		Shell Bug	Yagudo Feather Shell Bug	Bronze Nugget Shell Bug	Water
Fire	Red Rose	Red Rose	Red Rose	Brass Nugget Red Rose		Yagudo Feather Giant Bird Feather Silver Beastcoin Red Rose	Red Rose		Bronze Nugget	Fire
Ice	Marlboro Vine Yagudo Feather	Marlboro Vine	Marlboro Vine Mythril Nugget	Marlboro Vine	Steel Nugget		Marlboro Vine	Marlboro Vine	Bronze Nugget Marlboro Vine	Ice
Wind	Beastcoin	宿木		Chocobo Feather	Chocobo Feather	Copper Nugget	Chocobo Feather Yagudo Feather	Chocobo Feather	Bronze Nugget	Wind
Light	Bird Egg Crawler Silk	Bird Egg Giant Bird Feather	Bird Egg Giant Bird Feather	Bird Egg Giant Bird Feather	Bird Egg Giant Bird Feather	Bird Egg Giant Bird Feather Chocobo Feather Lumicloth	Platinum Nugget Rain Lily Gold Beastcoin	Bird Egg Giant Bird Feather Gold Beastcoin	Bronze Nugget Gold Beastcoin	Light
Dark	Yagudo Feather Black Chocobo Feather	Giant Bird Feather Black Chocobo Feather		Giant Bird Feather Black Chocobo Feather	Black Chocobo Feather		Black Chocobo Feather Giant Bird Feather Gold Beastcoin	Dark Nugget Dark Stone	Black Chocobo Feather Gold Beastcoin	Dark
None	Tree Sapling	Crawler Silk			宿木		Bird Egg Platinum Nugget		Tree Sapling Bronze Nugget Gold Nugget	None

多肉チャート
こちらもまだ公式設定が公開されてないので、推測です。
多肉は入手が割と困難ですよね…
収穫できるクリは最初に与えたクリの弱属性が収穫されます。
ここもネタくさい報告の品は暫定でおいておきます。（これらも斜字表記で。）

多肉の場合、石はデフォルトくさいので欄外でなくデフォルト欄に入れさせて頂きました。

↓#1/#2→	Earth	Lightning	Water	Fire	Ice	Wind	Light	Dark	None	←#2/#1↓
Earth	Adamant Ore Yellow Rock Earth Stone	Yellow Rock		Red Rock Black Rock	Iron Ore Darksteel Ore		White Rock		Zinc Ore	Earth
Lightning		Purple Rock					Purple Rock			Lightning
Water	Transparent Rock		Transparent Rock Shell Bug							Water
Fire		Silver Ore		Red Rock Brass Nugget						Fire
Ice		Silver Ore	Mythril Ore		Gold Ore Flint Stone		Platina Ore (?)			Ice
Wind	Green Rock Silk Cloth				スズ石				Zinc Ore	Wind
Light	White Rock Platina Ore (?) Light Stone Lumicloth		White Rock	White Rock	Platina Ore (?) White Rock	White Rock	White Rock Lumicloth Platinum Nugget	White Rock	Zinc Ore	Light
Dark	Black Rock	Black Rock			Iron Ore Darksteel Ore		Black Rock	Black Rock Chocobo Feather 羅紗 Platina Ore (?)	Zinc Ore	Dark
None	Iron Ore	Silver Ore			Gold Ore	Green Rock	Platina Ore (?)	Darksteel Ore	Adamant Ore	None

Tree Sapling Chart
こちらもやはり公式設定が公開されてないので、推測です。
収穫できるクリは最初に与えたクリの弱属性が収穫されます。（1個目無なら2個目で）
殆どの場合クリは塊単位で収穫できます。（闇クリのみクリ単位での報告があります）
デフォルトはスタック可能ですが、霊芝以外数が半端じゃなく多い場合があります。
多肉の時同様、金庫に十分な空きを用意して下さい。

＊属性鉱石について＊
鉱石はアタリ（デフォ４種における石みたいなもの）扱いっぽいです。
いままでにおいて、報告があった組み合わせは
　Ｘ・Ｘ＝Ｘ鉱石
　無・Ｘ＝Ｘ鉱石
　Ｘ・無＝Ｘ鉱石
　光・Ｘ＝Ｘ鉱石
　無・無＝光鉱石（←これにより苗は光属性だと推定）
このどれしもが低確率で鉱石を作るっぽいのですが、どれも確実だとFAはありません。
一応可能性がある組み合わせには斜字表記で載せておきます。

↓#1/#2→	Earth	Lightning	Water	Fire	Ice	Wind	Light	Dark	None	←#2/#1↓
Earth	キトロン Earth Stone	キトロン	キトロン	キトロン	/NOBR>	キトロン	キトロン	キトロン	キトロン 霊芝 Earth Stone	Earth
Lightning	銀の葉	銀の葉 Lightning Stone	銀の葉	銀の葉	銀の葉	銀の葉	銀の葉	銀の葉	銀の葉 Lightning Stone	Lightning
Water	ミスリルの葉	ミスリルの葉	ミスリルの葉 Water Stone	ミスリルの葉	ミスリルの葉	ミスリルの葉	ミスリルの葉	ミスリルの葉	Water Stone	Water
Fire	Cinnamon	Cinnamon	Cinnamon	Cinnamon Fire Stone	Cinnamon	Cinnamon	Cinnamon	Cinnamon	霊芝 Fire Stone	Fire
Ice	Platina Leaves	Platina Leaves	Platina Leaves	Platina Leaves	Platina Leaves Ice Stone	Platina Leaves	Platina Leaves	Platina Leaves	Platina Leaves 霊芝 Ice Stone	Ice
Wind	Wind. Tea Leaves	Wind. Tea Leaves	Wind. Tea Leaves	Wind. Tea Leaves		Wind. Tea Leaves Wind Stone		Wind. Tea Leaves	霊芝 Wind Stone	Wind
Light	Gold Leaves Earth Stone	Gold Leaves Lightning Stone	Gold Leaves Water Stone	Gold Leaves Fire Stone	Gold Leaves Ice Stone	Gold Leaves Wind Stone	Gold Leaves Light Stone	Gold Leaves Dark Stone	霊芝 Light Stone	Light
Dark	Persicos	Persicos	Persicos	Persicos	Persicos	Persicos	Persicos	Persicos Dark Stone	霊芝 Persicos Dark Stone	Dark
None	霊芝 Earth Stone	霊芝 Lightning Stone	Water Stone	霊芝 Fire Stone	霊芝 Gold Leaves Ice Stone	霊芝 Wind Stone	霊芝 Gold Leaves Light Stone	霊芝 Gold Leaves Dark Stone	霊芝 Gold Leaves Light Stone	None

Veggie seeds (earth): N/S Gusta, Konschtat, La theine, Ordelle, Jugner, Batallia
Grain (fire): N/S Gusta, Konschtat, Tahrongi, Meriphaud, Ordelle
Herb (wind): Latheine, Tahrongi, Meriphaud, Ordelle, Jugner
Fruit (water): Battalia, Crawler's Nest, Boyada Tree

N/S Gusta(Walking Sapling): Grain Veggie (Steal: ?)
Konschtat(Strolling Sapling): Grain Veggie (Steal: ?)
Tahrongi(Strolling Sapling): Grain Herb (Steal: ?)
Latheine(Strolling Sapling): Veggie Herb (Steal: ?)
Jugner(Wandering Sapling): Veggie Herb (Steal: ?)
Meriphataud(Wandering Sapling): Grain Herb (Steal: Herb)
Batallia(Stalking Sapling NM): Veggie Fruit (Steal: ?)
Batallia(Sobbing Sapling HNM Trigger?): Fruit (Steal: ?)
Ordelle(Stalking Sapling): Veggie Grain Herb (Steal: Grain)
Ordelle(Slash Pine): Grain Herb (Steal: Veggie)
Crawler's Nest(Caveberry): No drop (Steal: Fruit)
Crawler's Nest(Witch Hazel): Fruit (Steal: ?)
King Ranperre's Tomb(Cheery Sapling HNM Trigger): Fruit (Steal: ?)
Boyahda Tree(Boyahda Sapling NM): Fruit (Steal: ?)