Performed the upgrade to WordPress 3.2. I am still having the same issue with multisite users.
Basically, I created a new site, created a new user for that site and made them the administrator of that new site.
When I visit the new site and click Log In, it takes me to the root log in. However, no matter which log in I use (the root or the individual sites’ login), I still get the error “…you do not currently have privileges on this site”. The new version then gives me a link to the dashboard for this new user’s site, which returns me right back to the “No privileges” page.
I am looking at the site right now in the network and this user is listed as the administrator. I have deleted the site and the user and recreated them both, once letting the new site create the user, and again creating the user first then the site. Still no go.
Someone, please help me get this going.