| Spellstone Sorcerer KaroodStarstrike Blast · 083 | Starstrike Blast | 083 | Secret Rare | $1.15 |
| Spell-Stopping StatuteThe Lost Millennium · 058 | The Lost Millennium | 058 | Rare | $0.16 |
| Spell StriderThe Dark Illusion · 037 | The Dark Illusion | 037 | Super Rare | €0.04 |
| Spell StrikerYu-Gi-Oh! World Championship 2007 promotional cards · 001 | Yu-Gi-Oh! World Championship 2007 promotional cards | 001 | Super Rare | $0.12 |
| Spell VanishingDark Crisis · 101 | Dark Crisis | 101 | Super Rare | €0.02 |
| Spell WallCosmo Blazer · 088 | Cosmo Blazer | 088 | Common | $0.16 |
| Spenta, the Magistus SealerBurst Protocol · 098 | Burst Protocol | 098 | Secret Rare | €8.76 |
| Sphere KuribohDimension of Chaos · 020 | Dimension of Chaos | 020 | Rare | €0.12 |
| Sphere of ChaosRaging Battle · 093 | Raging Battle | 093 | Secret Rare | €25.32 |
| Spherous LadyLabyrinth of Nightmare · 059 | Labyrinth of Nightmare | 059 | Common | €0.04 |
| Sphinx of the CycleDoom of Dimensions · 028 | Doom of Dimensions | 028 | Common | €0.02 |
| Sphinx TeleiaExclusive Pack · 003 | Exclusive Pack | 003 | Ultra Rare | €0.35 |
| Spider EggStardust Overdrive · 068 | Stardust Overdrive | 068 | Common | €0.08 |
| Spiders' LairAbsolute Powerforce · 054 | Absolute Powerforce | 054 | Common | $0.11 |
| Spider TokenUnlisted Printings | Unlisted Printings | — | — | $2.63 |
| Spider WebStardust Overdrive · 045 | Stardust Overdrive | 045 | Common | $0.20 |
| SpikebotPharaoh's Servant · 081 | Pharaoh's Servant | 081 | Common | €0.02 |
| Spiked SnailUnlisted Printings | Unlisted Printings | — | — | — |
| Spike SeadraLegend of Blue Eyes White Dragon · 103 | Legend of Blue Eyes White Dragon | 103 | Common | €0.03 |
| Spikeshield with ChainCosmo Blazer · 076 | Cosmo Blazer | 076 | Common | €0.03 |
| Spined GillmanRaging Battle · 034 | Raging Battle | 034 | Common | €0.50 |
| Spinos TokenUnlisted Printings | Unlisted Printings | — | — | — |
| Spin TurnThe Infinity Chasers · 013 | The Infinity Chasers | 013 | Super Rare | €0.09 |
| Spiral DischargeRise of the Duelist · 068 | Rise of the Duelist | 068 | Common | €0.05 |
| Spiral Flame StrikeDuelist Pack: Dimensional Guardians · 001 | Duelist Pack: Dimensional Guardians | 001 | Ultra Rare | €0.13 |
| Spiral FusionRise of the Duelist · 050 | Rise of the Duelist | 050 | Common | €0.02 |
| Spiral RebornRise of the Duelist · 069 | Rise of the Duelist | 069 | Common | €0.07 |
| Spiral SerpentStrike of Neos · 003 | Strike of Neos | 003 | Rare | €0.02 |
| Spiral Spear StrikeFlaming Eternity · 043 | Flaming Eternity | 043 | Rare | €0.19 |
| Spirit BarrierSoul of the Duelist · 051 | Soul of the Duelist | 051 | Rare | €1.09 |
| Spirit BurnerAncient Prophecy · 050 | Ancient Prophecy | 050 | Common | €0.06 |
| Spirit CallerAncient Sanctuary · 075 | Ancient Sanctuary | 075 | Common | €0.07 |
| Spirit CharmersStructure Deck: Spirit Charmers · 041 | Structure Deck: Spirit Charmers | 041 | Ultra Rare | $0.12 |
| Spirit ConverterReturn of the Duelist · 099 | Return of the Duelist | 099 | Secret Rare | $0.10 |
| Spirit EliminationLabyrinth of Nightmare · 102 | Labyrinth of Nightmare | 102 | Common | €0.05 |
| Spirit ForceCrimson Crisis · 064 | Crimson Crisis | 064 | Super Rare | €0.05 |
| Spirit IllusionMaze of the Master · 034 | Maze of the Master | 034 | New | €0.13 |
| Spirit Message "A"Labyrinth of Nightmare · 091 | Labyrinth of Nightmare | 091 | Rare | €0.04 |
| Spirit Message "I"Labyrinth of Nightmare · 089 | Labyrinth of Nightmare | 089 | Rare | €0.02 |
| Spirit Message "L"Labyrinth of Nightmare · 092 | Labyrinth of Nightmare | 092 | Rare | €0.03 |
| Spirit Message "N"Labyrinth of Nightmare · 090 | Labyrinth of Nightmare | 090 | Rare | €0.04 |
| Spirit of FlamesLabyrinth of Nightmare · 067 | Labyrinth of Nightmare | 067 | Common | €0.02 |
| Spirit of the BooksTournament Pack: 2nd Season · 020 | Tournament Pack: 2nd Season | 020 | Common | $3.85 |
| Spirit of the BreezeLabyrinth of Nightmare · 037 | Labyrinth of Nightmare | 037 | Rare | €0.14 |
| Spirit of the Fall WindShining Victories · 039 | Shining Victories | 039 | Rare | €0.03 |
| Spirit of the HarpLegend of Blue Eyes White Dragon · 078 | Legend of Blue Eyes White Dragon | 078 | Rare | €0.05 |
| Spirit of the MountainUnlisted Printings | Unlisted Printings | — | — | — |
| Spirit of the PharaohAncient Sanctuary · 062 | Ancient Sanctuary | 062 | Ultra Rare | €0.05 |
| Spirit of the Pot of GreedInvasion of Chaos · 009 | Invasion of Chaos | 009 | Short Print | €0.10 |
| Spirit of the Six SamuraiGladiator's Assault · 033 | Gladiator's Assault | 033 | Common | €0.50 |