Ok, I took a look at my grid and this is the situation that seems to cause the pager button alignment issue. It seems when there is only one page, the alignment of the right pager buttons is off, otherwise when there is more than 1 page the button alignment is rendered as expected.
Here are links to the search page that I'm using it on, so you can see it for yourself. The first link shows a search the return returns only one result causing a single page to show in the pager and the alignment issue occurs. The second one shows the search page with around 10 pages and the pager is rendered correctly.
Search Page With Only One Page Showing
Search Page With Mulitple Pages
Also, the version I'm using is the latest one, 2009.1.402.20, and the skin I'm using is WebBlue.