I figured out build and opener for hive mind to deal with new penalties in form of amenties. Baiscally:
Civics: Ascetic (-15% amenities usage), One Mind (+15% unity)
Pops: extremely adaptive, charismatic, slow breeders + 2 other any negative traits to compensate
Policies: Nutrimental Plentitude, Extraction Policy (at least till eco will handle balanced economy)
Traditions: Start Adaptability, take 10% habitability then +1 building slot, then move to synchrocity and pick trait for +2 maintenance drones from depot and -10% amenities usage, then whatever u want, i recommend max out prosperity for more synaptic drones and get that juicy unity and society research by the way.
Results: Bad planets have 50% habitability, normally pop will consume 1.4 food, 1.9 on nutrimental plentitude AND 1.25 amenities per pop. Every colony can start with spawning pool at day 1. Meantime maintenance drone produces 6 amenities, so depot generates not 25 but 30 total. Green tech will eventually slap 4x5% habitability research, which will eventually make bad planets even better. Unlock genetics and hive worlds - once hive world spam is real it's possible to scrap traits on pop for something more useful then.
Conclusion: nerf on organic species for habitability penalties caused some issue but it was doable to deal with it with specific build. Amenities costs increase nerfed just one thing which is no longer you can use non-adaptive with strong production traits if you plan mass colonizing unless u accept having every third pop doing something on planet, while one is getting maintenance and other is getting food.