Just cloned my first site, and while most everything appears to have gone really smoothly, I have a couple of questions:
1. Cloner appears to change the permalink structure on both the original and duplicate sites. I'm not sure why it does this. As I'm hoping to use Cloner to push from staging to production, it's going to be a pain if I have to reset permalink every time I make a migration. (I'm pretty sure I saw this discussed somewhere in the forums, but I can't find it again by searching.)
2. Is there a setting somewhere (or a table I need to protect) to keep the names of each blog separate? I can already see some confusion between the production & staging sites in the My Sites menu, just because the name was copied.
3. A lot of images reported an "invalid size" when cloning. What does that mean?
4. It appears you can't update WP or a theme on a non-primary site, which makes MultiSite not an ideal place for staging. Am I wrong about that? (Please tell me I am!)