In Ultima VII, the Avatar first had to use the Soul Cage with the well to give it power by taking some power from the souls within. Mordra admitted that this was rather brutal and heartless, but that the souls would recover from it, and the sacrifice was worth it to ensure their freedom. After the liche was destroyed, it needed the final sacrifice of a ghost to destroy the well and set the souls free.
Only after everyone else declined did mayor Forsythe do the sacrifice to atone for his error that had caused the destruction of the city, destroying the Well of Souls in the process.
In spite of this, the Well of Souls reappears in Ultima IX in the ruined Skara Brae, now housed in a huge temple. The Avatar uses it to enter the Spirit Realm, and ends up in a ghost version of Skara Brae where he must help tormented spirits find peace. This is also where he finds Shamino, who had entered the Spirit Realm to find out the true nature of the columns and the Guardian.
- One of the souls in the well is Marney. This is the very reason why Quenton won't make the sacrifice, out of fear of hurting her.
- That the well appears in Ultima IX can only been seen as another error, as it was clearly destroyed in Ultima VII.
- The Well of Souls also appeared in the infamous Bob White Plot for Ultima IX, but rather than leading to the Spirit Realm, it involved the Avatar descending into the hole created by its destruction in Ultima VII inside the remnants of Horance's tower, to a place called the Catacombs of the Angry Dead. It also housed one of the Guardian's columns.
- The real-world "Well of Souls," found in Jerusalem, is thought by some to be the last resting place of the Ark of the Covenant. It was seen (though relocated to Tanis, Egypt) in the movie Raiders of the Lost Ark.