Is she flying with you or in cargo?
I would suggest getting a different type of crate and start over with training. (hopefully that will get rid of some/many negative connections she has with the current crate.) Crate Games dvd has some excellent suggestions for getting a dog into a crate and liking it. If you can't get another crate, you could you take the current crate apart and do some crate games then put it back together and start over with the start of the crate games. Go slowly.
If you're thinking about drugs, you will absolutely need to do one or more "test" runs before the flight.
