X-Men: The Animated Series
#1 - The Dark Phoenix Saga (Part 4): The Fate of the Phoenix 8.77
Season 3 - Episode 14
The X-Men face the Shi'ar Imperial Guard in a trial by combat to spare the life of Jean Grey, though even they begin to question the safety of the universe as long as the Dark Phoenix remains alive inside her.
#2 - Beyond Good and Evil (Part 4): End and Beginning 8.77
Season 4 - Episode 11
Two of Apocalypse's former evil allies, the captive Wolverine, the loose cannon Cable, and the exiled Bishop, come together to free the kidnapped psychics and save reality from being rewritten.
#3 - Graduation Day 8.73
Season 5 - Episode 14
Due to a serious injury, Professor Xavier is dying and must leave with Lilandra and go with her to the Shi'Ar Empire. He bids farewell to his X-Men. The last scene of this show ends with all of the X-men standing outside the mansion watching Lilandra's ship carrying Xavier flying away.
#4 - Courage 8.67
Season 4 - Episode 3
Morph feels he's finally ready to return to the X-Men. But his homecoming is interrupted by the return of the Sentinels, the robotic mutant-hunters who nearly killed him the last time he faced them. Will history repeat itself?
#5 - The Lotus and the Steel 8.63
Season 4 - Episode 13
Finding himself continually losing control, Wolverine takes a sabbatical to Japan, in an effort to find inner peace in temple-building. Instead, he faces a village under siege by a group of bandits, and struggles to help them without compromising his search for his true nature.
#6 - Beyond Good and Evil (Part 3): The Lazarus Chamber 8.59
Season 4 - Episode 10
After swiping the government's own time machine, Cable ends up recruiting the X-Men on his mission to destroy Apocalypse's source of immortality at its creation.
#7 - Weapon X, Lies & Videotape 8.54
Season 3 - Episode 19
A cryptic postcard unleashes a flood of maddening and painful memories in Wolverine that threaten to drive him insane. To keep his mind from being torn apart, Wolverine and Beast travel to the one location that may hold the answers to his hidden past: the ruins of the top-secret Weapon X lab where Wolverine's bones were laced with adamantium. There he encounters other former 'test subjects'—Sabretooth, Maverick and Silver Fox—who are suffering similar mental breakdowns. Later they find out that many of their memories were implanted, and their true memories are destroyed with the lab.
#8 - The Juggernaut Returns 8.52
Season 3 - Episode 17
Professor Xavier's step-brother, and sworn enemy, the Juggernaut loses his powers to a bumbling archeologist. He must overcome the pain of their childhood together, and have the powers restored to him to save his life.
#9 - The Dark Phoenix Saga (Part 1): Dazzled 8.51
Season 3 - Episode 11
The flirtation between Cyclops and a mutant singer named Dazzler exacerbates the Phoenix-controlled side of Jean Grey, leaving her open for manipulation by a secret sect of mutants coveting her immense powers for their own evil designs.
#10 - The Dark Phoenix Saga (Part 3): The Dark Phoenix 8.49
Season 3 - Episode 13
As the Dark Phoenix grows increasingly hostile, even destroying an entire star system, the X-Men struggle to figure out a way to stop her without harming their teammate Jean Grey.
#11 - Xavier Remembers 8.43
Season 4 - Episode 16
Trapped on the astral plane after suffering a concussion, Professor Xavier is at the mercy of the Shadow King, and in desperate need of help from his X-Men, who are unable to hear him.
#12 - Obsession 8.42
Season 3 - Episode 10
Fueled on by his desire to seek vengeance against the immortal mutant that changed him into a weapon of evil, Archangel persaudes Rogue into helping him hunt down and destroy Apocalypse.
#13 - Beyond Good and Evil (Part 2): Promise of Apocalypse 8.41
Season 4 - Episode 9
When Oracle, the psychic member of the Imperial Guard is kidnapped by Apocalypse, Professor Xavier deduces his scheme involves capturing mutants with telepathic abilities. The X-Men are split up to track them down before the villains can, which puts Wolverine & Shard in the middle of a scuffle between Archangel and a ninja named Psylocke.
#14 - Phoenix Saga (Part 4): The Starjammers 8.40
Season 3 - Episode 6
Lilandra seeks to protect the M'Kraan Crystal from her wicked brother, the Emperor D'Ken. But the interstellar pirates known as the Starjammers capture it, and Cyclops, in an effort to enact their own revenge scheme on the emperor.
#15 - Family Ties 8.38
Season 4 - Episode 17
X-Factor's Quicksilver, and his sister, the Avenger called Scarlet Witch, seek revenge against Magneto when they learn that he was responsible for their birth mother's death. But the trio is unaware of the common bond between them, nor the true purposes of the mysterious man who brought them all together.
#16 - A Rogue's Tale 8.37
Season 2 - Episode 9
Haunted by visions of a strange woman, Rogue must come to grips with the dark secrets of her past prior to joining the X-Men.
#17 - Phoenix Saga (Part 5): Child of Light 8.34
Season 3 - Episode 7
Shi'ar Emperor D'Ken's rise to power via the M'Kraan Crystal is causing a universal implosion. The X-Men, Imperial Guard, and Starjammers find themselves overpowered and unable to stop it. Jean Grey must unleash her destiny as the host of the Phoenix, even at a most personal cost.
#18 - One Man's Worth (Part 1) 8.32
Season 4 - Episode 1
Bishop & Shard recruit Wolverine & Storm for a time travel mission to save Professor Xavier's life. Except they're from the parallel timeline where he died before founding the X-Men, a world where humans and mutants are in a constant war with one another. Not only do they pair lack a connection to him, but correcting history may put an end to their marriage.
#19 - Phoenix Saga (Part 2): The Dark Shroud 8.32
Season 3 - Episode 4
The X-Men barely survive their return trip from space, Jean Grey discovering herself changed by the experience. Professor Xavier's dark half is given form, and proceeds to attack his students.
#20 - Phoenix Saga (Part 1): Sacrifice 8.32
Season 3 - Episode 3
Following visions from recent dreams, Professor Xavier sends his X-Men on a mission to the Eagle One Space-Station, putting them in the middle of an interstellar conflict.
#21 - Days of Future Past (Part 1) 8.31
Season 1 - Episode 11
A mutant from more than half a century into the future, named Bishop, arrives in the present, attempting to change history for the better, by stopping an X-Man from committing an assassination. But between being chased by a future breed of Sentinel, and the details of his mission being fuzzy, he's got his work cut out for him.
#22 - The Final Decision 8.30
Season 1 - Episode 13
Prominent anti-mutant and presidential hopeful Senator Kelly is caught in a tug-of-war between Magneto's goal of mutant superiority, the X-Men's dream of peaceful co-existance between mutants and humans, and the mutant-hunting Sentinel robots' goals of global domination.
#23 - Proteus (Part 1) 8.27
Season 4 - Episode 4
The long hidden secret patient of Muir Island, a reality-warping mutant teen known as Proteus, escapes from his 15 year long captivity, and wreaks havoc across Scotland searching out his father.
#24 - Time Fugitives (Part 2) 8.26
Season 2 - Episode 8
To stablize his own timeline, Cable comes to the present to prevent Bishop from saving mutant-kind from Apocalypse's plague.
#25 - Out of the Past (Part 1) 8.26
Season 3 - Episode 1
A group of cyborg mercenaries, led by a woman from Wolverine's past, seek his forced help in unlocking the secrets of a long buried alien spacecraft.