She later went missing, with her assistant, Santiago claiming she had requested a meeting with Harper. In reality, she had been kidnapped by the Resistance, who removed her eyes and placed them in a replicant they created of her with the assistance of Kano Nakayama.
The group, led by Eve, invited Harper to their hideout. There, Eve urged Harper to join their cause by killing Lilith.
Lilith was shot and killed by Harper, who went to the Tyrell headquarters to assist the Lilith replicant in stealing Night Owl.
After Eve's death, Lilith asked Harper to stop the replicant Lilith from getting Night Owl to the Resistance.