I have version 2.6.1. I follow the instructions very carefully from http://codex.wordpress.org/Upgrading_WPMU
After this, I am redirected to /wp-admin/install.php (which behaves as if I have not installed a blog at all yet.)
I get this behavior from a vanilla tar.gz of 2.6.1 and 2.7.
My main blog tables are called wp_1_comments, wp_1_posts, etc. If I continue with the installation that I am prompted, new tables named wp_comments, wp_posts, etc are created.
Any one else having this problem from 2.6.1?