If you are noting a vibration through the vehicle that wasn't there prior to the trans installation there are a couple of things you can check. First, make sure the engine mounts are not broken. If the mounts are broken then the engine could have shifted during the trans removal and installation and you may have an engine or mount component touching the frame. Likewise, check the exhaust for any contact on the frame or crossmember, this can also set up a pretty healthy vibration. Third, have you gone to poly mounts on the engine or transfer case? These can set up a vibration you may not have felt previously as they do not quell vibration as well as rubber mounts will. If these all check out and there is no driveline to frame contact it is time to suspect the converter. Before you go to the trouble of removal, try clocking it at different positions on the flywheel to see if this helps. If not, pull it and ask for another from your builder.