Lara decides to head to St Francis’ Folly in Greece to get the piece before him. She meets Pierre numerous times: once when she has solved the trials of the folly, and later when she has gained access to the Colloseum. She uncovers the lost palace of King Midas and discovers that even he was hiding the Tomb of Tihocan. She meets and finally defeats Pierre before could escape with the second piece and the key for the Tomb of Tihocan.
She places the two pieces together and learns from it that the third and final piece is hidden in Egypt. With haste, she heads off. The only way to access the Sanctuary of the Scion is to collect four keys for an obelisk in the City of Khamoon. She battles Atlantean mutants, travels through a giant Sphinx, swims in a giant room with a huge statue of Horus and Anubis and fights centaurs. She fights Larsen once more and then escapes with all three pieces of the scion. Before she truly takes her leave, she places the three pieces together and learns that Natla was one of the three rulers of Atlantis, alongside Qualopec and Tihocan, but she is ambushed as she exits the chambers. Natla and her remaining workforce steal the pieces of the scion and her weapons before attempting to kill her. She escapes into the river below and follows them back to Natla’s yacht, which she climbs aboard and stays with them as they head to their next location.
They head to Atlantis. Lara spends some time in Natla’s Mines, finding and retrieving her weapons. Before she can take on Natla herself, she has to take out the others, the 'Cowboy', the 'Skateboard Kid' and the 'Bald Guy'. Lara gains access into the Great Pyramid, working her way up the main shaft of the pyramid to finally confront Natla and learn of her plans. Lara aims at the Scion to destroy it but Natla charges at her. Lara is able to grab the edge to save herself but Natla falls into the lava below, leaving Lara alone to face the giant abomination that was Natla’s new race. After constant dodging and firing at it, she kills it and restarts her journey back up to the top of the pyramid to destroy the Scion. She shoots it, causing the pyramid to start collapsing around her, so she makes her way out, meeting Natla and finally dealing with her once and for all. When Lara makes it outside, she steals Natla’s yacht and rides into the sunset as the pyramid explodes behind her.
Official FMV Story
The following information was given out by Eidos US in their FAQ section. The page is dated to July 28th 2000.
A nuclear explosion in Los Alamos, New Mexico hurled a piece of artifact to the sky where it landed in an undisclosed desert valley. From a hotel in Calcutta, Larson delivers a message to Lara Croft using a laptop computer link, live from Natla's office. Lara is given the job of finding an artifact called the Scion. The artifact supposedly contains " unknown powers" from Atlantis. Her first task is to go to Peru and into the City of Qualopec, an ancient Incan city, and find the first piece of the Scion.
Along with a guide, Lara finds the entrance to the lost city. Upon opening the huge doors, several wolves attack the guide. After Lara killed all the wolves and found the guide dead, she enters the opening when the doors suddenly closes behind her.
First Cut Scene (after the Tomb of Qualopec level):
Larson tells Lara that Natla has sent Pierre to find the other 2 pieces of the Scion, disclosing the location, St. Francis' Folly. Afterwards, Larson tries to put the hurt on Lara but she gets the better of him. Lara goes to Natla's headquarters, breaks in and looks for the information on where to get the next piece of the Scion.
Second Cut Scene (after the Tomb of Tihocan level):
Lara is reading an Egyptian hieroglyphics both from the wall and the cover of a tomb. After holding the 2 pieces of the Scion together, she is suddenly pulled into a dream about Atlantis; a scene of ancient rituals. The dream shows her where the last piece is located... in the ruins of ancient Egypt. Riding a motorcycle, she heads speedily to find the last piece.
Third Cut Scene (after the Sanctuary of the Scion level):
Coming out of the cave and blinded by the sun, Natla's hired companions sneak up on Lara. One of them, the Cowboy, takes Lara's pistols and the 3 pieces of the Scion. The Cowboy shows the Scion to Natla and she orders them to kill Lara. However, Lara eludes them by jumping off the cliff into the river. Once Natla and her companions drive away, Lara rides her motorcycle and chases them. She then arrives by a pier, finding out that Natla's party have boarded a yacht and are about to leave. Using her bike, she speeds up towards shore and jumps into the water, swimming towards the yacht, avoiding Natla's bodyguards and sneaking aboard the boat. Once in the boat, she goes inside a stow away and sleeps. When she wakes up, the yacht has stopped next to an island.
The scene begins with Natla placing the Scion in an ancient table, suspended by a magnetic field, when it suddenly turns and activates a count down timer. The mountain collapses revealing the pyramid of Atlantis.
The Great Pyramid:
As Lara approaches the same table where Natla placed the scion earlier, she falls into another dream; rituals of the old Atlantis with Natla being accused of stealing the Scion for personal powers. When she steps back, Natla confronts her regarding the power of the Scion. As the countdown elapses, Lara pulls the pistols when Natla pushes here towards the edge. Lara manages to grab the ledge on the opposite side while Natla falls to her death. Suddenly, the piece on top of the wall moves.
When Lara escapes from the Pyramid, Atlantis explodes. As our heroine swims towards the yacht and drives away, our story ends.