Merciless Repurposing

Exile target creature. Incubate 3. (Create an Incubator token with three +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)

Blighted Burgeoning

Enchant land
When this Aura enters, incubate 2. (Create an Incubator token with two +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)
Whenever enchanted land is tapped for mana, its controller adds an additional one mana of any color.

Injector Crocodile

When this creature dies, incubate 3. (Create an Incubator token with three +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)
Swampcycling {2} ({2}, Discard this card: Search your library for a Swamp card, reveal it, put it into your hand, then shuffle.)

Blight Titan

Deathtouch
Whenever this creature enters or attacks, mill two cards, then incubate X, where X is the number of creature cards in your graveyard. (Create an Incubator token with X +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)

Converter Beast

When this creature enters, incubate 5. (Create an Incubator token with five +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)

Gift of Compleation

When this enchantment enters, incubate 3. (Create an Incubator token with three +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)
Whenever a Phyrexian you control dies, surveil 1. (Look at the top card of your library. You may put that card into your graveyard.)

Glistening Dawn

Incubate X twice, where X is the number of lands you control. (To incubate X, create an Incubator token with X +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)

Tangled Skyline

When this enchantment enters, you gain 5 life and incubate 5. (Create an Incubator token with five +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)
Phyrexians you control have reach.

Elvish Vatkeeper

When this creature enters, incubate 2. (Create an Incubator token with two +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)
{5}: Transform target Incubator token you control. Double the number of +1/+1 counters on it.

Bloated Processor

Sacrifice another Phyrexian: Put a +1/+1 counter on this creature.
When this creature dies, incubate X, where X is its power. (Create an Incubator token with X +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)

Compleated Huntmaster

{1}, {T}, Sacrifice another creature or artifact: Incubate 3. (Create an Incubator token with three +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)

Agent of the Iron Throne

Commander creatures you own have "Whenever an artifact or creature you control is put into a graveyard from the battlefield, each opponent loses 1 life."

Traumatic Revelation

Target opponent reveals their hand. You may choose a creature or battle card from it. If you do, that player discards that card. If you don't, incubate 3. (Create an Incubator token with three +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)

Glissa, Herald of Predation

At the beginning of combat on your turn, choose one —
• Incubate 2 twice. (To incubate 2, create an Incubator token with two +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)
• Transform all Incubator tokens you control.
• Phyrexians you control gain first strike and deathtouch until end of turn.

Halsin, Emerald Archdruid

{1}: Until end of turn, target token you control becomes a green Bear creature with base power and toughness 4/4 in addition to its other colors and types.
Choose a Background (You can have a Background as a second commander.)

Ichor Drinker

Lifelink
{B}, Exile this card from your graveyard: Incubate 2. Activate only as a sorcery. (Create an Incubator token with two +1/+1 counters on it and "{2}: Transform this token." It transforms into a 0/0 Phyrexian artifact creature.)