<style>
tag accepts all the global HTML attribute, including class and id. So, you could do something like this:
wp.customize( 'custom_css', function( value ) {
value.bind( function( newval ) {
if ( $("#my-custom-style").length > 0 ) {
$("#my-custom-style").remove();
}
$('head').append("<style id="my-custom-style">"+ newval + "</style>");
} );
} );