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How closely did you look at the connector pins for cold solder joints? If there is a "ring" around the pin then the solder joint is likely bad.
You don't really write or install RPO's. You just go into a menu and set each option on or off.
I spent a couple hours looking and probing lines. I have the BCM and the tech 2 so I am just going to proceed with replacing it to see if my problem goes away.
In trying out the tech 2 I did stumble on the menu for reprogramming a BCM and, yes, you are correct it appears to just ask me which RPOs it has. I exited out once I saw what it was asking...I'll revisit tomorrow once the new BCM is in place and communicating with the PCM.