Richard Upjohn designed the current Church in a Neo-Gothic fashion using sandstone and stained-glass windows, features unheard of at the time. He selected the New Jersey limestone and designed the stained glass, which was made in Germany. Upjohn's design reflected a 'High Church' fashion with holy images that appeared glamorous to the eye. Then contemporary Protestant 'Low Church' people disapproved of this style because they were used to simple designs in churches — Upjohn's design seemed all too flashy. To pacify the 'Low Church' sentiment, Upjohn left the designs along the two main side walls simple and spare in appearance. This is the third Trinity Church.

Upjohn moved to New York in 1839 to work on Trinity Church there. At that time, it was thought that the Middle Ages were morally superior to the 19th century, and that the use of medieval forms would morally improve modern society. Uphohn made Trinity accordingly, although his plans for an elaborate interior were never carried out. He did, however, work on the stained glass over the altar with the painter and stained-glass artist Thomas Hoppin (1816-72). He would build many other Episcopal churches, including early versions of Grace and St. Thomas in NYC. He built many banks and St. John's Church in Bangor, ME. He helped found, and was the first president of, the American Institute of Architects.