Marvel Ultimate Alliance 2 Player

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The game starts with Doctor Doom having recently formed a new Masters of Evil. The new evil alliance launches an attack on the S.H.I.E.L.D. helicarrier U.N.N. Alpha and Nick Fury sends out a distress call to all available meta-humans or superheroes. Captain America, Thor, Spider-Man, and Wolverine are seen responding to the call and the heroes proceed to eliminate Doctor Doom's forces led by Scorpion, Bullseye, Winter Soldier, Radioactive Man, and Fin Fang Foom. After saving the Helicarrier, Nick Fury is given permission to form a task force to fight this new threat and Iron Man gives them permission to use Stark Tower as their headquarters since the S.H.I.E.L.D. Helicarrier U.N.N. Alpha was badly damaged by the Masters of Evil.

The first mission of the newly formed group of heroes is to investigate an odd message received from Dum Dum Dugan on the Omega Base, a S.H.I.E.L.D. mobile research facility. The player must fight through awakened Super Soldiers, AIM troopers and the super-villains M.O.D.O.K., Crimson Dynamo, and Mysterio so that they can prevent the Omega Base from crashing into Vondrak Dam and the Masters of Evil from launching several gamma bombs.

The next mission for the heroes takes them to Atlantis, where the inhabitants are being mind controlled by Attuma using Sonic Emitters (which Attuma has Warlord Krang and Byrrah guard one of them) who has usurped Namor the Sub-Mariner from his throne with the help of Tiger Shark. With the help of nanotechnology that enables them to breathe and move freely underwater, the heroes are able to save Namor and defeat the evil usurper. After defeating Attuma, the heroes meet with Mandarin deep in the catacombs. He escapes with the "Tome of Asarius", but unleashes the Kraken, which the player must defeat in order to complete the mission.

The player is then sent to The Valley of Spirits to confront Mandarin, where they encounter and recruit Doctor Strange. After finding and defeating Mandarin, it is revealed that he had attempted to take command of the Masters of Evil and, upon failing, left the group. He suggests that the Mandarin they saw in the catacombs was Loki, God of Mischief.

Due to Loki's involvement and Nightcrawler and Jean Grey's kidnappings, the heroes move their headquarters to Doctor Strange's Sanctum Sanctorum. The team learns that Professor Xavier has tracked Nightcrawler to Castle Doom, but upon trying to transport the heroes are sent to Murderworld by a spell of Baron Mordo. While traveling through Murderworld, the heroes rescue Blade from one of Arcade's machines and he joins the Alliance. After defeating a mind-controlled Jean Grey, Rhino, and Shocker, the heroes confront Arcade the master of Murderworld.

Upon defeating the game fanatic, the heroes learn from him that Doctor Doom has used Nightcrawler to gain access to Mephisto's Realm. The team is then sent to Mephisto's Realm. Upon arriving, minions of Mephisto kidnap Jean Grey and Nightcrawler. After the heroes rescue Ghost Rider from Mephisto, Blackheart, one of Mephisto's minions, puts the two X-Men in separate cages above the Infinity Vortex. The player is faced with the choice of whether to save Nightcrawler or Jean Grey. One of them must be saved and another sacrificed before the team can defeat Mephisto.

Using the Super Soldier Serum, stolen from the Omega Base, a massive army of Super Soldiers attacks Asgard and imprisons the Asgardian Gods. They head to Bifrost Bridge to defeat the Wrecking Crew so that Bifrost Bridge can be opened to allow the reinforcements on Midgard to arrive.

The player must travel to Valhalla to liberate it from its invading force, and to free Tyr (who is guarded by Scorpion and Lizard), Heimdall (who is guarded by Rhino and Shocker), and Balder followed by a battle with Enchantress and Executioner. The team is victorious although the Enchantress escapes.

Later, the heroes head to Niffleheim and defeat Kurse and Ulik. The Twilight Sword is found to be shattered, having been used to take Odin's powers as stated by Sif. The heroes learn before their battle with Ymir that Doctor Doom and Loki took Odin to Raven's Spire. After a battle with the betrayed Baron Mordo and Ultron, the heroes face off against Loki. After Loki is apparently defeated at Raven's Spire, the player is sent to free the Destroyer Armor, to use against Doctor Doom. It is revealed that you were tricked into freeing the armor for Loki. The heroes defeat Loki and the armor, but Doctor Doom appears and reveals that he has stolen Odin's power. He uses it to try and kill the heroes; or so it seems. Uatu the Watcher saves them and transports them to the base of the Inhumans on the Moon. Uatu reveals the only way to beat Doom is to find the M'kraan Crystal and steal the Muonic Inducer from Galactus, who is currently attacking the Skrull homeworld.

While the heroes are away, Doctor Doom conquers Earth and corrupts many heroes after defeating them as well as using Odin's powers to create evil clones of the playable heroes. Upon arriving back at Stark Tower, the team finds that Doom has converted it into "Doomstark" tower. The player must fend off an army of Iron Man-based robots so that they can reactivate the tower for their use.

The final level is set in Latveria, home of Doctor Doom, and whilst there they defeat the corrupted evil heroes, evil clones of the heroes, many clones of the Fantastic Four, and confront Doctor Doom. The heroes use the two devices obtained earlier to weaken Doom and upon being struck down by the heroes, Doom is blasted by a bolt of lightning sent by a rejuvenated Odin, leaving nothing but his mask behind.

Nick Fury tells the heroes that the team must disband and asks the heroes if S.H.I.E.L.D. can count on them when another threat happens. Captain America replies by saying that the world can always count on them. Meanwhile, Galactus vows revenge on the heroes who stole from him and plans to destroy Earth.

During the game, a subplot takes place where Weasel attempts to find proof that the Black Widow is a double agent, and the player needs to obtain various pieces of information to aid his efforts. Ultimately the players call Nick Fury with information of Black Widow's apparent betrayal, it is revealed that Black Widow is innocent and her suspicious activities were part of an operation to try and retrieve plans that Doctor Doom had stolen from S.H.I.E.L.D. However, a phone call made during the credits reveal that the Black Widow had been using Weasel to steal information from S.H.I.E.L.D. then setting up Weasel for the fall.

After the game, Uatu tells the player of how his/her actions in the game (such as not completing missions the right way, or not completing side missions) have changed the future. Here are the futures that Uatu explains:

The game features over 140 characters from the Marvel Universe. Players are able to create teams, and have online and co-operative play, for up to four players. In arcade mode, players will have to fight for the most kills in order to get the experience points at the end of the level. There are also special comic book missions, revisiting a moment in a character's past and facing a classic arch rival. Characters may have up to four costumes, which can alter the stats of the character.

Players will fight in mid-air, underwater and on the ground, with fully destructible and interactive environments in over seventeen locations, traveling around different locales on planet Earth, different dimensions, and even the depths of space by the end of the game. The game has alternative endings, affected by the decisions the player(s) make throughout the game. These endings are based on whether or not the player chooses to complete optional missions.

The game is quite rewarding for fans of Marvel's characters, providing lots of bonuses and nods to knowledgeable fans who know their comic history. Putting together teams of characters who have a shared history together, for example, may give team bonuses (ex. using Captain America, Iron Man, Thor and Ms. Marvel on the same team would yield you the Avengers, giving you a boost in attack damage for all team members). Using particular characters to interact with other NPCs can also yield additional dialogue, and villains will also react accordingly when met with their nemeses (for example, Bullseye will talk directly to Elektra upon seeing her in the first chapter). The game also features trivia games, artwork and many more references to the Marvel Universe.

While many characters in the game by default are rendered with the appearance they have in the Ultimate Marvel line of comics, the world of the game is predominantly based upon that of the original Marvel Universe, with many villains, character designs and references to events that exist only in that continuity (for example, Galactus is the original Marvel Universe's version, not Ultimate Marvel's hive-minded robotic version).

Marvel: Ultimate Alliance for Game Boy Advance was made by a different creative team and has become a side-scrolling fighting game with minor RPG elements, such as the ability to alter basic stats, that apply to the whole team at once. The graphics are simplified for this system and the selection of characters has also been reduced. Some additional gameplay modes were introduced in this version through a S.H.I.E.L.D. Simulator: Boss Rushes, Time Challenges, Scavenger Hunts, and a Survival mode. Teams for this port consist of three characters and a striker, a non-playable fourth character who can be summoned to perform a powerful attack directed toward on-screen enemies. The story of the game follows the basics of Raven's script, but omits many events, details and change some story elements to skip certain levels completely. The game has only 5 types of enemies that you fight on each level. The sprites of those enemies look similar to some enemies from the main game, but they're called differently and through the story the game refers to these generic enemies as if they were different for each location just like in Raven's version.

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