The part of the game where Rose had to evade dolls of her mother is eerily similar to dealing the Weeping Angels in Doctor Who. In that the dolls can only move, and kill, when unobserved.
There's an early hint Kay isn't real. Her refers to Miranda as "Mother Miranda". Only Miranda herself has the ego to use the title; everyone else, especially Heisenberg (who HATED her), never do so.
The reason Rose snapped at her handler in the epilogue makes more sense after playing through. She's met Eveline and utterly detests the brat.
Eveline is revealed to be in the hive mind in the mold; despite dying away from it.
Chris is still active with Hound Wolf Sqaud, despite being 65 at the time.