The thunderstorms were caused by a raging Thunderbird, angry that a gift he provided to an old friend was stolen (the grave robbery). The homeless man in Judges Cave is the Thunderbird in Human form. Kyle White is the grave robber and he sold the item to Strange Ways. Oscar is informed Miranda had nothing to do with the Thunderbird and he drops his accusation, but not his animosity.
The item is returned to the grave, Kyle is run out of town, and the Thunderbird provides a feather to both Sara White and Teddy for their aid to him.