While the manga adaptation of the first Advanced Generation movie is rather faithful to the original film, a number of differences are present.

What follows is an outline of the major differences between the manga version of the story and the anime version. The guide is not exhaustive by any means, but it does touch upon the points that I felt were worth mentioning.

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Masato's Wish In the anime, the first thing Masato wishes for is candy.  As soon as the young boy makes the request, Jiraachi makes a ton of candy appear in the bus, seemingly out of nowhere.  It is soon determined that the candy wasn't created by Jiraachi, but was merely teleported to the bus from a nearby candy stand. In the manga, however, Masato's first wish isn't quite so nice.  Everyone keeps bugging him to have Jiraachi grant them their wishes, and before long Masato becomes annoyed.  So, the young boy asks Jiraachi to make Satoshi, Haruka, and Takeshi disappear.  Jiraachi teleports the three trainers away, presumably to a lake, and then teleports them back moments later.

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Opening Jiraachi's "True Eye" In the manga, Butler successfully kidnaps Jiraachi after everyone arrives in Faunsu.  As Satoshi and the others are trapped in a force field, Butler tries to convince Jiraachi to open its True Eye to absorb the energy from the comet.  Jiraachi refuses, of course, so Butler gives Jiraachi an ultimatum; open up its True Eye or he'll kill Masato! In the anime, Jiraachi is unconscious when it's kidnapped, and its True Eye opens automatically, so no threat is required.

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Butler's Magic Wand In many fantasy tales, a magician's magic wand is a medium through which powerful attacks can be focused.  If one thinks to the likes of Merlin or, more recently, Harry Potter, one will see that the wand is a magician's most valuable tool.  In the manga, Butler's wand is no different.  When Satoshi and Masato first confront Butler while riding a Flygon, Butler tries to prevent Masato from turning off the machine by firing a beam from his magic wand.  Later, after the Meta-Groudon is created, Butler uses the wand again to deflect a tentacle headed for Masato.  In the anime, however, Butler's wand is merely a prop used in his stage show and is not used as a weapon at all.

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