Chaz self

We took a 2008 for focus Manuel transmission and swapped it into our 2013 transit connect. The swap went flawless but now we can not far the ecm to recognize the Manuel transmission. Thus going into limp mode after 10 mph. We tried installing 2008 key into the transmission but now we can not break the security code. Please any help with any suggestions. Ford dealerships will not touch us in Wisconsin. Text or call also works. Chaz 715-fourfour1 0threesixtwo