President Obama's Bowing

Now it is already an old news, but I want to write about the bowing of President Obama.
He went to Japan in the November of 2009, and met with His Majesty of the Japanese Emperor. When he met with the Emperor, he showed the Emperor his deep bowing. This caused an intense political battle. Some people stood by Obama, "It is natural to bow when we meet with somebody in Japan. Is it a reprehensible behavior?"
Another people said that, "The Obama's attitude was very humbling. The US President should not do such an attitude to any people."
Sure, bowing is a general custom in the Japanese society. However it is very rare to watch such an action in diplomatic scenes. An important thing is that the Japanese people and the government don't want foreign diplomats to bow to our Emperor. We know that bowing is just a local custom. Even if foreigners don't bow to us, there is no problem. Actually, most of the national guests who came to Japan didn't bow to Emperor. To my knowledge, the diplomat who bowed to our Emperor was only Obama. His action didn't please us, because it caused an intense political battle. Emperor should be free from such a political battle under the Japanese constitution. We felt that Obama politically used our Emperor to break some political matters.
We have the international protocol of diplomacy not to cause such problems. The attitude by Obama wasn't suitable for the protocol.
He should know that diplomacy is more complex. He won't be able to get our respect by bowing. The Japanese people aren't so stupid.