Cool RP idea
@Ser_Sunday !
Fallout 4, all by itself, has quest glitches. Modding it, can and often does add more. Some quests have trigger spots for sure and requirements (if this, then that), etc. and it's an old game now, but many of us still love it.
Troubleshooting is often pretty difficult - trying to get the same glitch to show up in game play. When I play I always save at the beginning of a quest, and reload if something doesn't work out. The SS2 Team does "additions", rather than "changes" to vanilla, and hasn't made any changes to the Nuka World DLC
I can continue my game play to claim another settlement, but I'm not sure how much that will actually help resolve anything for you