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Is this the WWR measure you are using? https://bcl.nrel.gov/node/37880

If so, note the modeler description in the measure: "The construction chosen for the new window is defaulted to what is assigned to the space, or inherited from a higher level object, such as the building. If the baseline model uses hard assigned constructions you may not get the expected results."

It sounds like your seed model must have constructions assigned directly to the windows. Since there can be multiple window constructions, the measure doesn't know what to use for the new windows. If you instead set the window construction for the space/building in your seed model, it should work.