I had the same problem.
In my theme I have a ‘settings’ page, which needs jQuery.
I had this code:
wp_register_script( 'jquery.min', get_template_directory_uri().'/js/jquery.min.js');
wp_enqueue_script( 'jquery.min' );
And I fixed the problem by loading it only for the ‘settings’ page:
if( isset( $_GET['page'] ) && $_GET['page'] == 'settings' ){
wp_register_script( 'jquery.min', get_template_directory_uri().'/js/jquery.min.js');
wp_enqueue_script( 'jquery.min' );
}