| Title | Season | Episode # | First Aired |
|---|---|---|---|
| Mother | 1 | 3 | Saturday November 20, 2004 |
| Night of the Chimera's Cry | 1 | 7 | Saturday December 18, 2004 |
| Reunion of the Fallen | 3 | 35 | Saturday November 12, 2005 |
| Sealing the Homunculus | 4 | 47 | Saturday February 18, 2006 |
| Secret of Ishbal | 3 | 39 | Saturday December 10, 2005 |
| Sin | 3 | 31 | Saturday October 15, 2005 |
| Soul of the Guardian | 2 | 20 | Saturday March 26, 2005 |
| Teacher | 3 | 27 | Saturday September 17, 2005 |
| That Which Is Lost | 2 | 16 | Saturday February 26, 2005 |
| The Alchemy Exam | 1 | 6 | Saturday December 11, 2004 |
| The Flame Alchemist, The Bachelor Lieutenant, | 3 | 37 | Saturday November 26, 2005 |
| The Ishbal Massacre | 2 | 15 | Saturday February 19, 2005 |
| The Man with the Mechanical Arm | 1 | 5 | Saturday December 4, 2004 |
| The Other Brothers Elric (1) | 1 | 11 | Saturday January 22, 2005 |
| The Other Brothers Elric (2) | 1 | 12 | Saturday January 29, 2005 |
| The Other Side of the Gate | 4 | 49 | Saturday March 4, 2006 |
| The Phantom Thief | 1 | 10 | Saturday January 15, 2005 |
| The Philosopher's Stone | 1 | 8 | Saturday December 25, 2004 |
| The Red Glow | 2 | 21 | Saturday April 2, 2005 |
| The Scar | 3 | 40 | Saturday December 17, 2005 |
| The Sinner Within | 3 | 36 | Saturday November 19, 2005 |
| The Stray Dog | 4 | 43 | Saturday January 21, 2006 |
| The Truth Behind Truths | 2 | 19 | Saturday March 19, 2005 |
| The Untainted Child | 3 | 29 | Saturday October 1, 2005 |
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