There's a lot of loud thunder throughout the film, but only one flash of lightning (when a tree is hit).
In the final scene where Ambrose Applejohn is climbing the wall with the help of a vine, it is clear by the action of the vine that it is controlled from above.
In the scene where Poppy and Anna meet, just before they leave the room, a fly is seen crawling on the left cheek and ear of Kay Strozzi. Scene is cut to Mary Brian and then back to Kay again, where the fly once again lands on her, this time on the right cheek.