Answered by Shaykh Faraz Rabbani
What should a Hanafi do when praying behind an Imam who goes to ruku`, rises, and then reads Qunut aloud in the third cycle of witr after taraweeh? I see some brothers leave and not pray witr because of this, some (including myself) pray behind the Imam but do not raise their hands for du’aa and do not say ameen out
If the imam prays witr as one 3-rakat prayer, you can pray behind him. You still do the qunut in its proper place (which is before the ruku), though quickly (by limiting yourself to a short dua, such as “Rabbi ‘ghfir li” 3 times) in order to catch the imam while he is still in ruku.
When he recites the qunut after ruku, you don’t raise hands, and keep quiet.
Wassalam,
Faraz