Regarding the Kythera not counting issue, Niantic claimed the | RGNN Ticker

Regarding the Kythera not counting issue, Niantic claimed the count is just temporarily delayed and will catch up with the progress in a bit. https://t.me/NianticOfficial/298

Update: Niantic claimed the delay issue is now resolved and they're working on moving the badge from general to Anomaly badge area on profile.