Many a witch’s death here in question (2,5)
I believe the answer is:
at stake
'in question' is the definition.
(both can mean at issue or under discussion)
I don't understand the rest of the clue.
Can you help me to learn more?
(Other definitions for at stake that I've seen before include "where many martyrs died" , "Being risked or bet on" , "Being risked, depending on outcome of event" , "To be won or lost" , "Being risked, like money with bookie" .)