I'm getting married at Precious Blood. It's a very long isle and there are stained glass windows. It's got an original balcony and wood pews. The altar is pretty plain, but you should at least check it out. And, they are semi-liberal...or at least that has been my experience. I attached a picture that shows the windows and the aisle, but all the lights were off so don't judge a book by it's cover. ;)
Also, any of the churches downtown have that old feel.
Good Luck. I had the hardest time finding places in Fort Wayne! :) Where's the reception?