Viconia was petrified in the nderdark by beholders and I just used a stone to flesh scroll on her but then she turned hostile and disappeared! Im not sure if anybody has had this problem...but if anybody could tell me what it will take to get her back, im all ears! Ive tried finding her in the gov't district and in the copper cornet.

It sounds like she's gone. You can try using console commands to spawn a new copy, or reload a save and see to it she's not turned to stone.

The best advice I can give you at this point is that when you run into something odd like that, reload and don't let it happen again. If her being petrified is unavoidable and she turns hostile again, you might cast Protection from Petrification on Viconia before the battle, or keep her away from the beholders. Yes, this requires metagame knowledge and not good from a roleplaying perspective, but the bug certainly makes no roleplaying sense.

By the way, are you fully patched?

i have no patches installed...yet.