Add a footnotes style list of links at the bottom of a page. Hide with class `.printOnly`. Depending on your environment, it may be necessary to scope the target container (eg: avoid including navigation links).

footnoteLinks.js

/*------------------------------------------------------------------------------
Function:       footnoteLinks()
Author:         Aaron Gustafson (aaron at easy-designs dot net)
Creation Date:  8 May 2005
Version:        1.3
Homepage:       http://www.easy-designs.net/code/footnoteLinks/
License:        Creative Commons Attribution-ShareAlike 2.0 License
                http://creativecommons.org/licenses/by-sa/2.0/
Note:           This version has reduced functionality as it is a demo of 
                the script's development
------------------------------------------------------------------------------*/
function footnoteLinks(containerID,targetID) {
  if (!document.getElementById || 
      !document.getElementsByTagName ||
      !document.createElement) return false;
  if (!document.getElementById(containerID) ||
      !document.getElementById(targetID)) return false;
  var container = document.getElementById(containerID);
  var target    = document.getElementById(targetID);
  var h2        = document.createElement('h2');
  addClass.apply(h2,['printOnly']);
  var h2_txt    = document.createTextNode('Links');
  h2.appendChild(h2_txt);
  var coll = container.getElementsByTagName('*');
  var ol   = document.createElement('ol');
  addClass.apply(ol,['printOnly']);
  var myArr = [];
  var thisLink;
  var num = 1;
  for (var i=0; i<coll.length; i++) {
    var thisClass = coll[i].className;
    if ( coll[i].getAttribute('href') ||
         coll[i].getAttribute('cite') ) { 
      thisLink = coll[i].getAttribute('href') ? coll[i].href : coll[i].cite;
      var note = document.createElement('sup');
      addClass.apply(note,['printOnly']);
      var note_txt;
      var j = inArray.apply(myArr,[thisLink]);
      if ( j || j===0 ) {
        note_txt = document.createTextNode(j+1);
      } else {
        var li     = document.createElement('li');
        var li_txt = document.createTextNode(thisLink);
        li.appendChild(li_txt);
        ol.appendChild(li);
        myArr.push(thisLink);
        note_txt = document.createTextNode(num);
        num++;
      }
      note.appendChild(note_txt);
      if (coll[i].tagName.toLowerCase() == 'blockquote') {
        var lastChild = lastChildContainingText.apply(coll[i]);
        lastChild.appendChild(note);
      } else {
        coll[i].parentNode.insertBefore(note, coll[i].nextSibling);
      }
    }
  }
  target.appendChild(h2);
  target.appendChild(ol);
  addClass.apply(document.getElementsByTagName('html')[0],['noted']);
  return true;
}
window.onload = function() {
  footnoteLinks('content','content');
}
/*------------------------------------------------------------------------------
Excerpts from the jsUtilities Library
Version:        2.1
Homepage:       http://www.easy-designs.net/code/jsUtilities/
License:        Creative Commons Attribution-ShareAlike 2.0 License
                http://creativecommons.org/licenses/by-sa/2.0/
Note:           If you change or improve on this script, please let us know.
------------------------------------------------------------------------------*/
if(Array.prototype.push == null) {
  Array.prototype.push = function(item) {
    this[this.length] = item;
    return this.length;
  };
};
// ---------------------------------------------------------------------
//                  function.apply (if unsupported)
//           Courtesy of Aaron Boodman - http://youngpup.net
// ---------------------------------------------------------------------
if (!Function.prototype.apply) {
  Function.prototype.apply = function(oScope, args) {
    var sarg = [];
    var rtrn, call;
    if (!oScope) oScope = window;
    if (!args) args = [];
    for (var i = 0; i < args.length; i++) {
      sarg[i] = "args["+i+"]";
    };
    call = "oScope.__applyTemp__(" + sarg.join(",") + ");";
    oScope.__applyTemp__ = this;
    rtrn = eval(call);
    oScope.__applyTemp__ = null;
  return rtrn;
  };
};
function inArray(needle) {
  for (var i=0; i < this.length; i++) {
    if (this[i] === needle) {
      return i;
    }
  }
  return false;
}
function addClass(theClass) {
  if (this.className != '') {
    this.className += ' ' + theClass;
  } else {
    this.className = theClass;
  }
}
function lastChildContainingText() {
  var testChild = this.lastChild;
  var contentCntnr = ['p','li','dd'];
  while (testChild.nodeType != 1) {
    testChild = testChild.previousSibling;
  } 
  var tag = testChild.tagName.toLowerCase();
  var tagInArr = inArray.apply(contentCntnr, [tag]);
  if (!tagInArr && tagInArr!==0) {
    testChild = lastChildContainingText.apply(testChild);
  }
  return testChild;
}

jquery-footnoteLinks.js

// If insetead you're already using jQuery

(function($){
  $(document).ready(function() {

    var appendFlag = function(i, el) {
      $('<sup class="footnote-flag printOnly">' + (i + 1) + '</sup>')
        .insertAfter(el);
    }
    var pluckHref = function(i, el) {
      return $(el).attr('href');
    }
    var toLi = function(i, href){
      return '<li>' + href + '</li>';
    }

    var links = $('a')
      .each(appendFlag)
      .map(pluckHref)
      .map(toLi)
      .toArray();


    $('<h2 class="printOnly">Link List</h2>')
      .appendTo('body');

    $('<ol class="footnotes printOnly">')
      .append(links.join(''))
      .appendTo('body');

  });
}(jQuery));

print.css

/* Smashing winery
   Example site for article at Smashing Magazine
   by Christian Krammer, ck@css3files.com
   
   Print style */

/* Reset quotes */
q {
    quotes: none
}

q:before, q:after {
    content: ""
}   

/* Hide everything unneeded */
header h1, header nav, footer, img {
    display: none
}

/* font sizes */
body {
    font: 12pt Georgia, "Times New Roman", Times, serif;
    line-height: 1.3;
    color: #000;
}

h1 {
    font-size: 24pt
}

h2 {
    font-size: 14pt;
    margin-top: 25px
}

aside h2 {
    font-size: 18pt
}

/* Show printer-frindly logo. */
header .print {
    display: block
}

/* If you like things a little bit easier and more semantic you can alternatively just leave the h1 of the header visible, switch off the margin and make it bigger than the rest of the headlines */
/*header nav, footer, img {display: none}

header h1 {
  margin: 0;
	font-size: 30pt;
}*/

/* Some browsers like to show a border around images. Switch it off */
img {
    border: 0
}

/* Mover the header a little bit awy from the content */
header {
    margin-bottom: 40px
}

/* Display the URL of the site so that the user knows where the printout came from */
header:after {
    display: block;
    content: "www.smashing-winery.com"
}

/* Additionally/optionally a little message could be displayed */
/*header:before {
	display: block;
	content: "Thank your for printing our content at www.smashing-winery.com. Please check back soon for new offers about delicious wine from our winery.";
	margin-bottom: 10px;
	border: 1px solid #bbb;
	padding: 3px 5px;
	font-style: italic;
}*/

/* Separate blockquotes a little bit from the rest */
blockquote {
    font-size: 13pt;
    font-style: italic;
}

/* By default links are blue. For optimal legibility change them to black */
p a {
    color: #000
}

/* Show the URL after each link, whereby internal links are preceeded by the site's URL */
p a:after {
	content: " (http://www.smashing-winery.com/" attr(href) ")";
	font-size: 80%;
	word-wrap: break-word;
}

/* External links don't get this treatment */
p a[href^="http://"]:after, p a[href^="https://"]:after {
    content: " (" attr(href) ")";
}

/* Append the source of the citation */
q:after {
    content: " (" attr(cite) ")"
}

/* The Sidebar is placed under the content automatically. To distinguish it from the rest a border and a gap is set before */
aside {
    border-top: 1px solid #bbb;
    margin-top: 30px;
    display: block;
	/*page-break-before: always; */ /* Moves the sidebar to new page */
}