You can stick to the Main quests and just not do the Side ones other than those needed to support a Main, like recovering Edgar's stuff and getting Rosy's bakery running again. So, yeah, the Temple/Tower conflict.Yea I guess if there's an actual end goal, it's probably the conflict between the tower of dread and the church of Qetesh aka Nergal vs Qetesh... hopefully there's a way to get a peaceful ending to it all and not lose one side because you chose the other. Tho admittedly it would be pretty ballsy of Tinkerer if you could only choose one side and you'd actually have to kill all the other characters from the opposing side (that'd be painful as hell tho and I hope it won't come to that).
My personal speculation is the MC brings the factions together to face the real Big Bad. ("Unites" doesn't sound right to me. More like, a common enemy.