Not sure, if you can neither see her nor leave the inn, try harrassing her. Yes, sounds strange, but that fixed a few can't leave without her bugs.
If you can leave though, sure you've looked everywhere? Also, I remember... the translator?... telling me to sleep in the bed of the first inn. That supposedly fixes a few "can't find her" bugs.
For me harrassing her worked, strangely enough. One morning I can't leave because she's missing (supposedly atleast, she
was following me though) and after harrasing her (didn't the game just tell me she's not there?!) she's back and we can leave... =_=