The plot involves a squad of four law enforcement agents investigating the disappearances of people by working their way downwards through layers of a towering mega-city.

Upon their arrival, Carter asks Control to check out Minoko's father, Dr. Joseph Molenski, who was once a skilled technician and a biological engineer, and who was sacked from Real Meat for stealing machinery for his own research.

During their investigation, they stumble upon a video of Dr. Molenski, saying that he has found a nuclear bunker underneath, and has also rigged up a basic gene splicer.

The other three UPA Team members rescue Minoko, and they deactivate Lucy's time dilation field causing her death.

Molenski removes the computer connected to Lucy's head and inserts it into a robot body he has built for her to try to keep her brain alive.

[21][22] The Electric Playground gave the PC version a favorable review and said, "A few minor annoyances like poor enemy AI and some puzzles that seem almost too difficult keep it from a higher score, but if you’re looking for a game you can invest some time in and not feel like you came away with nothing, welcome to Eden.

Once finished, it's doubtful any gamer will return to the city depths";[24] and of the PlayStation 2 version, "It is designed specifically for those who enjoy using their minds, and it will occasionally even frustrate the best of those players.

[26] Project Eden was a nominee for GameSpot's 2001 "Best Adventure Game" award, which ultimately went to Myst III: Exile.