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The perspectives may not (yet) be synced, but they are still pretty easy to move around if you only change them on one machine at a time. They live in a directory called Library/Application Support/OmniFocus/Perspectives in your home directory. Themes live in the neighboring Themes directory, and can be moved around similarly. Just copy any changed files to your other machines and restart OmniFocus.

Toolbar customization and other settings are unfortunately not as easily handled, though you could "sync" them by taking a screen shot of your new settings, embedding (not linking!) that screenshot in a new action with Edit->Attach File, and then consulting it on your other machine(s) after doing a sync to propagate it. You'll still have to do the reconfiguration, but at least you'll have a guide to what you did.