The problem is that they promised Nanamo that they would help if something happened. Yet they abandoned both Raubahn and the Scions. I'm pretty sure that they knew that anything that the monetarists said about the people that have helped them countless times was a lie. They least they could have done was making a protest in the name of the Aliance.
As far as I'm concerned, Nanamo and Raubahn have always tried to go the extra mile when someone has needed Ul'dah's help, be it the refugees, the domans, or the defense of Ishgard. They had their hands tied and Ul'dah has their own problems too, but still they tried to help and support as much as they could. I can't say the same about Gridania and Limsa, usually.
Eorzea has lost a lot this day.