I wouldn't worry too much. When you said she had half her shed off though, do you mean it is flaking off, or was she halfway through slithering out of her old skin? If it's flaking off, you must certainly need to get your humidity in check.
I've had snakes whistle before with bits of skin stuck, yes. Also is she a particularly large ball python? My 4000g girl kind of wheezes a bit if I'm holding her a certain way. Kind of like a fat person wheezing when they get up out of a comfy chair, lol. My Dumeril's also kind of whistles/huffs sometimes, but she is huge.
I'd suggest putting a bigger water bowl in her cage, especially if she is gravid. If she lays and you don't get to them right away you don't want them to dry out too much.
Also - depending how close she is to laying, you may want to get the rest of her shed off. If it's estimated to be the next few days that she will lay, I would wait as additional stress is a recipe for disaster.
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