Adobe announced that they are adding Rotate & Scale to an upcoming beta of Media Encoder.
You asked and we listened! Coming to beta this week are two new features in Media Encoder: the ability to scale video and to rotate video. Related, we’ve also added a feature to flip the output width and height. This makes matching the output to a rotated clip a one-button-click.
This is great, as the iPhone has been known to record in the wrong orientation and this will easily let you correct it when recompressing to a better format.