A long time after the blast of Hughes' yacht, the player gets up from a state of extreme lethargy in a doctor's facility ward of Stilwater Penitentiary, having accepted far reaching plastic surgery. The player meets prisoner Carlos Mendoza, who has had himself wounded so as to meet the previous. Carlos uncovers that his sibling was in the Saints, and the pair get away from the island together. After coming back to the Stilwater territory, the player uncovers that the Saints' old neighborhood has been totally modified by the Ultor Corporation, the garments organization, which, clarified via Carlos, has developed into an effective enterprise while the player was in a state of unconsciousness. After that, and with the development of three new posses who needed control of the city, the Saints had disbanded.
The player lands at a neighborhood bar, running across that Johnny Gat is on trial, and that he is prone to be put on death column, and that Troy Bradshaw, Julius' master, was an undercover cop and is presently head of the Stilwater P.d. The player salvages Gat from the courthouse, and Gat clarifies that Julius has turned up lost since the yacht blasted, and that Dex dropped his banners and started working for Ultor. The player drops Johnny off home, where he likewise meets with Aisha, Johnny's sweetheart, who has faked her own particular demise to stay away from police consideration. With Gat's help, the player enrolls three new lieutenants: Carlos, Shaundi and Pierce. The player, now alluded to as the Boss, heads the Saints in retaking city with Gat as second-in-command.
Despite the fact that the image and the group color are still the same, the team has changed. The player is currently the pioneer of the Saints, Johnny Gat is the second-in-charge, and Carlos Mendoza, Shaundi, and Pierce Washington are the new lieutenants. Since the congregation has been redesigned, the Saints get together in the old 1940s inn beneath the mission house, which was dropped underneath ocean level years back by a quake, and constructed over. Eventually, they reconstruct the inn in their private bordello and parlor.
The Boss and Carlos meet with Maero, pioneer of the Brotherhood of Stilwater, in the Underground Caverns. Maero wishes for the Saints to work with the Brotherhood to stay away from unnecessary carnage, however before things could be talked about, police run across the gathering and the three are compelled to shoot their approach to wellbeing. Notwithstanding cooperating against the police, the Boss gets irritated at Maero's offer of a 20/80 part of benefits between the Saints and the Brotherhood, bringing about the two packs going to war. The Boss shakes down Brotherhood workman Donnie, a previous Westside Roller who utilization to really like Lin, compelling him to apparatus a few of the posse's trucks with explosives, and likewise smolders Maero's face by harming his tattoo ink with radioactive waste. The Brotherhood strike back by grabbing and mercilessly tormenting Carlos by dragging him behind a truck, constraining the Boss to euthanize him out of leniency. The Boss demands exact retribution by grabbing Maero's lady friend Jessica Parish, and masterminds her to be unintentionally executed by Maero in a creature truck rally rivalry at the neighborhood coliseum.