Cloner does not copy the site 100% correct

I tested cloner and tried to copy a site: http://www.maindomain.com/site1/ tot http://www.maindomain.com/site2/ On site 1 i have an childtheme of enfold.

After i cloned the site the menu was not working right some button colors were different.

Is cloner not perfect yet or did i do something wrong?

Or is there another solution to copy a site 100% correctly.

Somebody adviced: WP Migrate DB ??