Meta query not showing result properly

You are missing relation argument for inner meta_query arrays as described in the Code Reference.

Also, when you use 'compare'=> 'IN', the 'ship-from' value should be the array.

$args = array(
   'post_type'  => 'post',
   'meta_query' => array(
        'relation' => 'AND', // note this!
        array(
             'key'    => 'ship-from',
             'value'  => 'usa',
             'compare'=> 'IN' 
        ),
        array(
             'key'       => 'profit-margin',
             'value'     => array(0,100),
             'meta_type' => 'numeric'
             'compare'   => 'BETWEEN'
        )
   )
);