An SAFC requires that either the AFM or MAP sensor wire going into your ECU to be cut. With the controller itself missing, the ECU is getting nothing from the MAP/AFM wire. Being a pretty important (!!!) sensor, your ECU will be having a heart attack.
I would just remove all of the SAFC wiring and reconnect the cut AFM/MAP wire. If your engine is fairly close to standard, then it should run fine.