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If waveports and lumped ports are setup correctly you should get exactly the same answer - if you are only solving for one mode and renormalising to 50 ohms anyway. If you use a 50 ohm lumped port you should get the same answers. The main difference is that a lumped port needs to go on an object that is literally drawn between your conductor and your ground, not the large area you use with a waveport.
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