Automated georeferencing in ArcGIS Desktop?

I assume you will have to create a script in ModelBuilder.

The georeference tool has a way to load the match pairs from txt file.

The format is simple...

1359096.642582 353463.253614 1343639.244522 360489.343642

1513436.420187 348310.787594 1531938.457260 360957.749644

source xy, and map xy.

You should also specify the transformation type. That will depend on how many points you have for each image. 1st, 2nd, or 3rd order polynomial or adjust.