Nemo and his fellow inmates at Kalpani Penal Colony are the slave labourers building an ironclad submarine - the Nautilus. Once finished, Nemo and a trusted crew plan to escape on it. But when Director Crawley arrives to demand the Nautilus be moved to Bombay to be armed - today - Nemo must leave. Now. With whoever he can muster as crew.

When an eerie red glow appears, the giant eel suddenly releases the Nautilus, it turns out to be a chain of underwater volcanoes. Without steering power, the Nautilus continues to sink towards the dangerous lava - and it soon becomes clear that only Humility can save the crew.

The underwater volcanoes turn out to reveal a clue to the legendary underwater city of Atlantis. A small group goes exploring and finds what appears to be an ancient outpost of the lost civilization, but also realizes that it is home to terrifying sea lilies and the crew must fight for their lives.

The Nautilus crew spread rumours that the East India Mercantile Company is failing. When the stock price plunges, a shareholder meeting is called for tonight. Nemo and the crew have three hours to scheme their way into that meeting, so they can dissolve the Company forever.