Presuming that only one popover can be visible at any time, you can use a set of flags to mark when there's a popover visible, and only then hide them.
If you set the event listener on the document body, it will trigger when you click the element marked with 'popup-marker'. So you'll have to call stopPropagation()
on the event object. And apply the same trick when clicking on the popover itself.
Below is a working JavaScript code that does this. It uses jQuery >= 1.7
jQuery(function(){var isVisible =false;var hideAllPopovers =function(){
$('.popup-marker').each(function(){
$(this).popover('hide');});};
$('.popup-marker').popover({
html:true,
trigger:'manual'}).on('click',function(e){// if any other popovers are visible, hide themif(isVisible){
hideAllPopovers();}
$(this).popover('show');// handle clicking on the popover itself
$('.popover').off('click').on('click',function(e){
e.stopPropagation();// prevent event for bubbling up => will not get caught with document.onclick});
isVisible =true;
e.stopPropagation();});
$(document).on('click',function(e){
hideAllPopovers();
isVisible =false;});});