Power Conduit

{T}, Remove a counter from a permanent you control: Choose one —
• Put a charge counter on target artifact.
• Put a +1/+1 counter on target creature.

Medicine Runner

When Medicine Runner enters, you may remove a counter from target permanent.

Hex Parasite

{X}{B/P}: Remove up to X counters from target permanent. For each counter removed this way, Hex Parasite gets +1/+0 until end of turn. ({B/P} can be paid with either {B} or 2 life.)

Thrull Parasite

Extort (Whenever you cast a spell, you may pay {W/B}. If you do, each opponent loses 1 life and you gain that much life.)
{T}, Pay 2 life: Remove a counter from target nonland permanent.

Chisei, Heart of Oceans

Flying
At the beginning of your upkeep, sacrifice Chisei, Heart of Oceans unless you remove a counter from a permanent you control.

Scholar of New Horizons

Scholar of New Horizons enters with a +1/+1 counter on it.
{T}, Remove a counter from a permanent you control: Search your library for a Plains card and reveal it. If an opponent controls more lands than you, you may put that card onto the battlefield tapped. If you don't put the card onto the battlefield, put it into your hand. Then shuffle.

Nesting Grounds

{T}: Add {C}.
{1}, {T}: Move a counter from target permanent you control onto another target permanent. Activate only as a sorcery.

Ferropede

Ferropede can't be blocked.
Whenever Ferropede deals combat damage to a player, you may remove a counter from target permanent.

Estrid's Invocation

You may have Estrid's Invocation enter as a copy of an enchantment you control, except it has "At the beginning of your upkeep, you may exile this enchantment. If you do, return it to the battlefield under its owner's control."

Clockspinning

Buyback {3} (You may pay an additional {3} as you cast this spell. If you do, put this card into your hand as it resolves.)
Choose a counter on target permanent or suspended card. Remove that counter from that permanent or card or put another of those counters on it.