It's not the business of government to delve into the subtle nuances of matters of faith and to criticize or direct the content of prayers or other ceremonies of that chaplian.
Too many people forget that the Constitution prohibits the government from even being conscious of differences of specific religious belief, or of gods and the way human beings think of them, or of God and how one might relate to Him.
If you don't like the chaplain's religious particulars keep it to yourself ~ his religious practices are none of your business, nor are your practices (or absence thereof) any of his.
Did you just discover an FR time-warp software bug, or are you posting to a four month-old thread?