sunroof is popped up but closed and it won't go back down & seal properly.

My 2014 Cherokee Trailhawk's sunroof is popped up but closed and it won't go back down. When I try to close the sunroof the sunchade comes forward intermittently, I can also hear a click on the passenger side of the sunroof. As it is, I cannot get it to seal up and close tightly.
Incidentally;
I just got my Trailhawk back the other day from the dealership where they replaced the tensioner belt,serpantine belt and the pulley as well as water pump & thermostat. Is there any way my sunroof issue is related to the service done? Also,
Any recomendations on getting the sunroof to seal and a fix for the dead buttons?
Thanks for any insight and knowledge you all may have.