The invention discloses an automatic check cord aligned folder sewing system and method. The automatic check cord aligned folder sewing system comprises a stock, a first folding device, a second folding device, a material shifting device, a regulating device, a sewing device and a camera device, wherein the first folding device is provided with a first folding tube for folding a first cut piece, and a regulating hole is formed in the first folding tube; the second folding device is provided with a second folding tube for folding a second cut piece; the material shifting device is used for shifting the first cut piece and the second cut piece to a sewing position; the regulating device is provided with a regulating press plate and a regulating drive part, the regulating press plate is arranged on the first folding tube, and the regulating drive part is used for driving the regulating press plate to move into the regulating hole to press the first cut piece; the sewing device is provided with the sewing position and is used for sewing the first cut piece and the second cut piece; and the camera device is arranged on the stock and is oriented to the sewing position. The automatic check cord aligned folder sewing system can save labor and is high in production efficiency.