I would cancel the restore from a backup. Because when you run pwnage tool it is going to erase everything anyway. Also, do you have your info like contacts backed up on your computer? If so, you should "set up as a new phone" instead of restoring from a backup.
Well before I cancel and do the JB "riddle me this joker"...........
When I jailbroke this phone the first time (2.1 I think) I lost everything like you described. With the 3.0 JB the data wasn't lost and the process was easier then the 2.1.
So why the difference?