Presumed dead after a Falspawn assault on an ARKS ship in AP 228, she appeared ten years later, having lost her memories as a result of photonic purification. She was then found by the protagonist, and began a road to recovery that ultimately lead to the restoration of her powers.

At the end of Episode 3, she sacrificed herself to prevent the protagonist from turning into the Profound Darkness, and as a result became the Profound Darkness herself. However, through the combined efforts of Persona and the protagonist, she was killed thus saving the universe from complete annihilation by the Profound Darkness. But through the interventions of Xion, time was rewound and the protagonist along with Persona managed to free her from the Profound Darkness.

Later on, Matoi and the protagonist entered stasis for two years to clear their systems of remaining corrupted photons.

In Episode 4, she now works as a Guardian, performing auxiliary missions for ARKS.

During her time as Klariskrays II, Matoi's personality was originally more spirited but still reserved due to her tendency to keep to herself. She was also incredibly ruthless and hard-handed towards the Falspawn and Dark Falz, yet, somewhat socially awkward.

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