Tracy,
If you are flying in an unpressurized cabin (small aircraft) your discomfort may be greater. Commercial aircraft keep cabin pressure stabilized at a certain point. It may not bother you anymore than what it does to your ears, or your sinus, when you have a sinus infection. I have eye issues and fly in unpressurized cabins all the time. Some days seem to be worse than others, just like on the ground.
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