I have a similar problem, but I think it's template related.
Some of the templates I use are fine, but some of them are also without formatting.
Somewhere in this extensive thread where people with the same issue, but they didn't post the solution (yet)
It could be in the config files you made for each site, but I still couldn't figure what detail to ad to them to get the templates showing up fine.
Perhaps in the config file for your site you also can point to the right database.
Sorry, I can't help you any further on the moment, because I'm still investigating the problem.
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