Maybe she is hungry, have you tried her on solids yet? My son started sleeping through the night at about 10 weeks but then started waking again at 15 weeks, I tried him with some solids just porridge etc and he started sleeping through again.
Maybe she has wind! - if she is barely awake for the late feed maybe she has not brought up the wind properly and has a bit of colic. Try making sure she is awake properly and is aware of being awake! Wind her properly and let her go to sleep be herself.
