I just installed the 2.0.2 update (updated from 2.0.0) and now, all my custom CSS has gone. I checked the Appearance section of the Admin panel and the custom CSS option has totally disappeared.
I require this to be fixed as the custom CSS I had on my site is quite important to it's functionality. I fixed some big CSS based problems with my theme using this and now it's a mess.
My blog can be seen at http://zfriendsblog.co