I was wrong, I have began to notice less NPC's specifically and some wildlife not spawning, it seems the person who commented about YTD's was correct. I have fully removed all modded clothing and all spawns are perfect. Flamingos spawning, overall more people in towns, people spawning in trolley cars, and trains in the wild having a good amount of passengers in each car. It seems, at least for me, that modded clothing is the culprit.