Let me get it straight. Opera house has attacked a few areas that are known for storage of smuggled goods for the black market and drug labs just to bait out the real master mind of this act. The church on that area is filled with the Kingdom's spies and are the ones leaking info about what the secret military is doing in the region and also the ones who sent the radicals to the capital. The colonel at the end is somehow connected to the federation or he is an affiliate sent by the federation to fix the damaged done by the Opera House.
Am I getting this right or do I have to start reading the LN?