It's disappointing that the timer is only available in the main sharing screen. This screen disappears when I view my popouts. Therefore, when I start a timer, only the attendees can see the timer but I cannot see the timer as a presenter. So frustrating. Is it possible that the timer is it's own pop out? This would be awesome.
When you say popouts do you mean break-out rooms? Are you using the classic GoToTraining or the new one?
After a lot of discussion back and forth, I finally called support and after they looked at it for awhile sent me a screen shot. The Timer is anchored to the camera view if you use the screen tabs when presenting. You have to open the cameras. It's in the top right of the camera view.