comment pager not showing in bootsrap theme
Adapted from this post on putting pagers above and below comments:

function mytemplate_comment_wrapper($content) {
  $comments_per_page = _comment_get_display_setting('comments_per_page');
  $content .= theme('pager', NULL, $comments_per_page, 0);
  return theme_comment_wrapper($content);
}


should render a pager for you if placed in comment-wrapper.tpl.php