Easily the stupidest/most ignorant comment I've ever heard. Tomahawks don't have air-to-air capability, nor do they ever fly at that altitude. Nor would the US military EVER test a missile through commercial airspace. This idea is especially spacious given that the test suggested would provide meaningless data.
If this quote is real, I very much doubt the authenticity of the "Navy Commander" given that I've never met one that stupid.
Has a Tomahawk EVER been fired at a moving target, let alone one 15,000 in the air, traveling at 400 mph?