After defeating the cube boss, using a portal gem to return to the lower ward has "reset" the area.

the fog of war returned, all npc's kinda reset. ie ,the fiend near the siege tower is back yet the quest to kill him is finished. the sick woman Dak'kon kills is reborn, Trist gives reward and leaves, again. etc.

the Brothel is reset so i can dupe Grace and have multiple in the party.. but the quests inside are already solved. the dialogues are reset so i have no way to fulfill the Ravel maze quest line.. even if i kill her for the hanker-chief, i cant give it to Quell.

i have joined the Gods-men but the gate is closed for good.

Every time i use a portal from the Cube, it resets the area.