AFAICS xprop is able to read multiple values for an atom property (separating them in output using ',') but is unable to set multiple values. Could you considering adding such a feature as it was requested by user [1]? [1]:http://stackoverflow.com/q/11700728/165333
A fairly common use case for this is trying to set WM_CLASS (which is a struct of name + class; the class is the important one but xprop can currently only set the name).
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