Manager X-394, who is controlled by the player, is the central protagonist throughout the course of Lobotomy Corporation. X sits in absolute safety, away from the events of the facility, while remotely monitoring the facility and giving out commands digitally and physically to both components and employees of the facility with the help of Angela. X is ultimately responsible for the fate and overall management of said facility, and the player will receive a game over if X fails to maintain control over the facilities and its subjects.
- Manager X's designation number (394) could be a reference to protagonist D-9341 from SCP Containment Breach, a game also focusing on an organization that contains various monsters and suffers from frequent escapes by said monsters.
|メカニック||一日のサイクル - ダメージタイプ - 職員 - 装備 - 雇用 - ロボポイント - 危険レベル - ランダムイベント - 研究 - ステータス - チャレンジモード|
|部門||コントロールチーム - 情報チーム - 安全チーム - 研究チーム - 中央指令チーム - 懲戒チーム - 福祉チーム|
|キャラクター||X（プレイヤー） - Angela - A - B|