We've got exactly same problem here but just using $.uniform.update("selector")
or $('selector').uniform()
didn't worked for us on cloned elements.
What we've done to get it work was to replace the closest .selector by the select itself and then unforming it again:
// clonedObject is a jQuery object containing our cloned select
clonedObject.closest('.selector').replaceWith(clonedObject);
clonedObject.uniform();
Hope this will save someone else a little time
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