My opinion as a coach is to suggest she park the bike and buy a cheap small bike from craigslist or eBay. The bike is simply to big for her skill level. If, she starts with something small she will get the technique sooner and allow her to move the larger bike and enjoy her self sooner. The longer she rides scared the more her odds increase of a crash. She can buy a $700-$1000 bike and ride it for months, or a year then sell it for the same amount.
Suggest taking the class again also.
The key is not to tell her the bike she has is the incorrect one, it simply requires more skill then she currently has. If, she really loves the bike she needs to build her skills first. Do everything you can to get her to park the bike, not only for her sake, but to prevent the bike from being dropped and cause damage.
Can a rider come out of the MSF course and ride a larger bike? Sometimes. Do I suggest it? Absolutely not!!! Some people learn faster then others. Some people learn motor controls faster then others. Some people can relax during stressful events. Some people multitask better then others and can handle all the controls required to operate a motorcycle easier. With that said, I have seen people ace the class and I still suggest a 500cc or smaller bike, not a blast. If, someone drops a bike during the class in no way shape or form should they be on anything larger then a 500cc to start.
You mention the right turn being a issue right. I do agree the head and eyes is more then likely a issue. However, there is a good chance she is shifting the weight of the bike to her left foot, since she can't flat foot. Remember, we teach student to put their left foot down first. Now, that she is out of class and can not put both feet on the ground anyway she is more then likely doing a short cut and not putting her right foot down at all, or not using it to balance the bike. This mean she is attempting to make a right turn with the bike already slightly leaned to the left. If she can not flat foot the bike it is to big for her, as a beginner.
Can a experienced rider ride a tall bike? Yes, once they do not fear the bike, acceleration, turn the head, looking 4-12 seconds ahead, and so on. The experienced rider does not have to think about the lean or the bike falling over during a stop, their experience has given them the muscle memory they need to not focus on the operation of the bike. If, you are an experience rider did you think "I need to look right, roll on the throttle, ease out the clutch, pick my feet up, turn the handle bars right, roll on the throttle more, ease out the clutch more, let the bike lean, and continue to look 4-12 seconds ahead" last time you made a right turn?
She is scared of the bike. The duck walking at stop signs and slow accelerations is an example of this. If, she is braking really early and walking the bike to a stop she more then likely is scared of the braking also. And, the fear of braking is dangerous. The more she does this on a heavy tall bike the more she will be scared. She more then likely is to scared to focus on the technique and how to get better.
She needs to get the technique down before moving to a big bike.
To answer your question, yes it does scare me from time to time. Three weeks ago I had a student pop the clutch, roll the throttle, scare herself, target fixate on me and aim right at me. I moved, she adjust and still headed right at me. As she scared herself, she put her foot down like a set of ski and let go of the throttle, no way for her to brake. At the last possible moment I moved (jumped) to her right and hit the engine cut off switch as she went by. She froze as soon as she started heading right at me. After I got her stopped she cried for 15 minutes before I could calm her down. Damn buell blasts!!! Pop the clutch and the bike accelerates. Second and last time I teach with those damn bikes.