[eluser]srpurdy[/eluser]
my guess is you have somewhere in your css an #pagination which probably defines the link as a larger sized div which makes the 2nd link appear under it. for example you probably have a specfic width or something or the css is designed to use the full width available. So each item is on a new line.
A Better option would be to make <div id="pagination"> inside the view file.
Code:
$config['cur_tag_open'] = '<a class="disabled" href="#">';
$config['cur_tag_close'] = '</a>';
for the active tag. so you can apply a style to the active page.
The way you have it now it's doing this.
<div id="pagination">1</div>
<div id="pagination">2</div>
I don't think that's what you really want...