While I'm not a religious person, I understand that many of those who serve in the United States military are religious and appreciate the comfort that Chaplains provide. I don't think it's a particularly great idea to have proselytizers among the troops, but you do serve under incredibly stressful conditions and sometimes dangerous situations so I respect your service.
There has been a lot of recent talk about the reaction of the Chaplain corps to the repeal of Don't Ask, Don't Tell and some (likely a small minority) have expressed their desire to keep the ban in place, even though they know that gays are already serving. They also know that this law makes gays' lives miserable and hangs their careers on a razor's edge. These Chaplains just can't get over their religion's prohibitions against homosexuality.
All I have to say to you is this:
If you can't treat your fellow soldiers like you wish to be treated . . .
if you can't serve their needs without judgement . . .
if you can't give every single person you come across the respect they have earned by serving their country by facing daily threats to their lives under the harshest conditions possible . . .
then F*ck You.
Your religion (whether Jewish, Christian or Muslim) is supposed to be about peace and loving your fellow man. I hope you wouldn't think twice about treating people of other religions, nationalities or skin color with respect and dignity; this shouldn't be any different.
If your bigotry against gays is so great that you can't treat everyone according to the peaceful, loving tenets of your religion, then you should resign and good riddance.