Assumption 1: You wish them to be always visible on the screen. A bit of CSS tweak will do:
progress {
    top:10px;
    position:fixed;
    right:10px;
}
#progressbar2 {
    top: 40px;
}
DEMO : http://jsfiddle.net/ddh3t/1/
Assumption 2: You want an animated fill, when the progress bar is visible. This requires change in JS:
(isScrolledIntoView from here).  
function isScrolledIntoView(elem) {
    var docViewTop = $(window).scrollTop();
    var docViewBottom = docViewTop + $(window).height();
    var elemTop = $(elem).offset().top;
    var elemBottom = elemTop + $(elem).height();
    return ((elemBottom <= docViewBottom) && (elemTop >= docViewTop));
}
$(window).scroll(function () {
    var s = $(window).scrollTop(),
        d = $(document).height(),
        c = $(window).height();
    scrollPercent = (s / (d - c)) * 100;
    var position = scrollPercent;
    var p1 = $("#progressbar"), p2 = $("#progressbar2");
    if(isScrolledIntoView(p1)) {
        var val = 0, delay = 32, timer;        
        timer = setInterval(function() {
            p1.attr('value', val++);
            if(val>=position) clearInterval(timer);
        },delay);
    }
});
DEMO : http://jsfiddle.net/ddh3t/3/
Note that p2 (the second progress bar) can be filled similarly.
Final Update : 
http://jsfiddle.net/ddh3t/6/