Barometric pressure is the reason for a good amount of that. Storms often are sightly preceded by low pressure systems. Joints in particular are sensitive to changes in pressure due to their anatomy.
Joints have synovial fluid that keeps bones from grinding against each other. The fluid is contained in a membrane and is not rigid. When the pressure outside of that membrane (and your body) changes that membrane will expand and compress. This is often very minute expansion or compression, but enough for the person whose joint it is to be acutely aware of it.
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