I am having a similar problem, but my website hasn’t come back yet. Since I cannot get in to the dashboard because the admin screen is blank, I can’t verify that I deactivated all my plugins before I started (although I do believe I did so). I can’t change my theme to Twenty Ten for the theme.
The first time I did the manual upgrade, I could access the site, but not the admin page. I deleted the files I uploaded for the upgrade and re-uploaded using a fresh download of WP 3.1.2 and that was when I lost my my site.
Please help!