EDEN, a virtual realityscape that has replaced the Internet for just about everything. Except ads. You're not forced to wade through countless annoying ads here. A character named Aiba is in the Happy Chatroom, conversing with friends. One person, Akkino, asks if anybody has heard of Digimon, Digital Monsters, which are known as programs employed by hackers for nefarious purposes, and can present as actual creatures in the virtual reality of EDEN.

Without warning, the password-protected chatroom is infiltrated by someone - or something - calling itself Mr. Navit, the mascot character for EDEN. Someone suspects him of hacking into the chatroom, which he confirms. He offers everyone a present if they log into EDEN the following day, but also threatens them with hacking if they don't. Of everyone in the chatroom, only 3 people seem tempted by Mr. Navit's offer: Akkino, Blue Box, and Aiba. They agree to meet the next day.

Welcome to the digital garden of EDEN! EDEN is a virtual world (metaverse) providing several revolutionary services in a new generation of digital content. Bountiful enertainment, including shopping and movies. Everything from corporate infrastructure to political administration... Everyone's needs are met. [...] The future of the net is not behind a screen. It is intuitive virtual reality through the use of avatars. EDEN is a human network connecting the world to the future, run by Kamishiro Enterprises.

The person behind Aiba is named Takumi, who logs into EDEN at the appointed time. (Takumi can be either male or female, according to player choice, but will be referred to here as male.) He eventually finds out he's supposed to go to Galacta Park in a section of EDEN known as Kowloon, a dangerous area known to be filled with hackers. Still, the others are there, so he goes, meeting up with both Akkino, whose real name is Nokia, and Blue Box, whose real name is Arata.

Kowloon is a strange place, untextured compared to more surface-level aspects of EDEN. There are no buildings, but only bue blocks of shifting data. Galacta Park itself has what looks like playground equipment, but it's fallen into disrepair and looks run-down, an odd contrast to the blue landscape, or the slick polished public areas of EDEN. It looks like the dumping ground for every unfinished and unused things that might have ever been part of EDEN, the dregs of the system.

When all 3 people have convened, and Arata stops looking for the rumoured digital ghost of a boy, Mr. Navit once again arrives, bringing his gift, something he claims "is the miraculous power to change the world." The gift is to hack the assembled 3, installing a program called the Digimon Capture, instantly marking and connecting them to hackers. Nokia, a bit freaked out, tries to delete the program, only to find that she can't. They're all stuck with it.

But they're not alone in Galacta Park. A pale figure watches then from the shadows, and runs away as soon as it's spotted, chased by Arata. Nokia wants no part in anything happening and so tries to leave, only to find that they're blocked up by the sudden appearance of a firewall. They have no choice but to head in the direction the pale figure went. Nokia decides to to stay put, leaving Takumi to chase after both the pale figure and Arata.

While searching for Arata, Takumi also encounters the pale ghost boy, and seeing him approach causes glitches in his vision and makes him fall over. Something about this boy is indeed mysterious, confirmed when he reaches out to Takumi and somehow "inscribes" something.

Takumi quickly comes back to himself, albeit a little confused about what just happened. Before he can resume the search for Arata and an exit, he's approached by a non-glitchy version of the pale ghost boy. He says that maybe the ghost was him after all, but who can really say, which isn't helpful in the slightest. What is helpful, however, is the way this boy guides Takumi through the process of acquiring his own partner Digimon, using the newly-installed Digimon Capture hacker tool.