When you get your car back, program the car like you usually do. BSR does a few checks to make sure it can program the car. If it can't or it is unsure, you'll get the READ CAR message. You let it read then upload the results to BSR. BSR will send you a new programming. Then you try to program your ECU again. Repeat the steps as needed.
You can search this forum for title search "BSR" and you'll get quite a few results. But no you don't have to send in your ECU to them. They send you a device which you plug into your OBD II port to program the ECU. So there is no downtime.
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