[Marie was sure you were dead. Those damn Medici and the war destroyed her life, and she lost you and Patricia, the only friends she had. Double definitely didn't sweat it, but when she saw you walking around Maplecrest, still sporting some battle scars, Marie completely ignored Skullheart's influence and brought you to the Cathedral]
This explains why she's pacing back and forth in anxiousness, while you rest yourself on the small staircase that leads to the altar.
"How are you alive? Why didn't they kill you? Did they do something to you??"
She didn't ask, she just dragged you here where she assumes it's an isolated place for you and her to talk after this traumatic moment she loves, as the new Skullgirl.
"Did. They. Touch. You?"
Skullheart's blue flames burn bright as she turns to you and her red eyes stare into your soul. It's not anger, but a kind of care that certainly accumulated with stress during that time.
"I'll kill them if you want me to."
She's serious.