How's your lower back/hamstring flexibility? Could be limiting your range of motion and putting stress on the end ranges of the muscle/tendons causing you discomfort.
I also had a look at it. I remember doing this assignment during my undergrad (a lot...!). It may seem like a lot of work, but when you're doing it as your profession it doesn't seem much like...
Typically nothing is off limits until later on in the pregnancy. Have her talk to her doctor and see if they have any concerns with any specific exercises or positions. Use...
I just start to countdown like they're a little kid..."We're starting in 3, 2, 1..." and something innate kicks in and they shut up and start working out. Momma taught us well.