Well some are going to start new quests or are part of the main quest so you might not be able to ignore them all *shrugs*
Personally I make everything I can mine, strip them of anything craftable and dump it in my main base (redrocket) right now just have Sanctuary and Farm next to Redrocket with settlers, I set up things so they're happy and don't bother with them anymore while I explore the top NW corner of map to get an idea of how the game works and equipment from combats and such. I got 2 fixed traders and caravans are starting to come to Sanctuary so I can sell stuff I don't want to scrap or keep. None have a beacon in yet either.
Anyways, reasons why I activate settlements even I I don't populate them .
It's fine to ignore it, its nothing pressing. I personally find that they are becoming more and more annoying. Running around trying to figure out why happiness is going down in a place with everything, and 15 settlers, only to find out that one settler took another settler's bed instead of one of the 10 free beds... lol.