Covenant was established in the early 1990s by a group who desired to see a church that adhered to a high view of Jesus Christ and the Scriptures.  This group believed this high view was articulated well in the reformed faith, and as result they worked to found a Presbyterian (PCA) church in southeastern Connecticut. The name "Covenant" was chosen to declare the special relationship God established with His people through His Son, Jesus Christ.

Covenant is affiliated with the Presbyterian Church in America , a denomination that strives to be faithful to the Scriptures, true to the Reformed faith, and obedient to the Great Commission. Since 1999, Covenant has been meeting in a historic building in Ledyard, Connecticut that formerly was the home of the Ledyard Grange. The building was constructed in 1922 by volunteers and moved to its present site in 1985 to make room for expansion of Rt 117 in Ledyard Center. Pastor Rodney Henderson is serving as pastor since May 2013..