After successfully capturing Rose, John and Cotton plan to extract information on the Grand Rite from her during the planetary alignment with Saturn. Mary assists Mercy in becoming a witch and initiates her into the hive.
While tackling his first X-File case, about a series of gruesome murders surrounding a bat-like creature, Doggett quickly learns that his investigative techniques are somewhat dissimilar to Scully's.
Scully and Mulder rush to the rescue after Doggett and a new FBI agent get in trouble while pursuing a deadly reptilian creature.
Mercy wants to rule Salem alone and uses Hathorne to do so. Anne is pregnant and being tortured by the devil. Cotton therefore returns to save and protect his unborn child and Anne.