Who says Ageira is taking sides in the war? The Rheinland government buys tradelanes from them as well as Liberty.
Keep in mind that enormous multinational companies not only survive the defeat of their parent nation, but often benefit from it by taking contracts to aid in the rebuilding. Profiteering usually takes precedence over patriotism.
Well, considering that Ageira is the Liberty Military's prime contractor...it would most likely be them. And I don't think they want to see Liberty lose the war either, as they would likely be treated as enemies of Rheinland just like the Navy itself.