Any chaplain brought on active duty must first be endorsed by a religious endorsing agency, normally a denomination. In the case of independent churches, they also have independent endorsing agencies to which such prospective chaplain can apply.
The military chaplain's responsibility is then to be a fully ordained representative of their denomination while serving as a chaplain. Additionally, a chaplain will have some non-religious duties that touch on religion: (1) advice to a commander on morale as affected by religion, and (2) counseling, observing, and at rare times, administrative control (not command control ever).
This chaplain sounds like a very capable representative of whatever endorsing agency that has approved him for active duty.
God bless this man and all chaplains who serve our military