I just picked up a 2006 Magnum R/T with the same issue. Really surprised this is so hard to figure out given the age of these cars, frequency of the issue, and the fact that there is a forum community out there. ( If there was a definitive post on this / FAQ etc I missed it)
I am planning on trying to get a 2007 PCM/ECM core i purchased to get reworked for my 2006. Some say this wont work but I don't see why it would not work....Seems like they changed the design for the PCM without changing the rest of the car..... and I'm guessing it was due to all the trouble they were experiencing since the car was not redesigned until 2008.
From what I have read I think Solo in FL might be a good place to try for a refurb.
Solo PCMS PCM ECM ECU Engine Auto Computers
Solo PCMS is a provider of PCM, ECM, ECU, and Engine Auto Computers
Unless I learn something else that's where I plan to go with mine next week after the holiday.
Any advice on if Solo is the right reburbish place? Also wondering if there is any way for we to configure this my self or go to an independent shop to have that done. Seems like a real scam that these are locked to the vin with no way to do it your self on a car that is more than 15 years old with an active hobby community,
If there is a good definitive thread on stalling / cutting out while driving on the highway etc please point me there. I have an OBD2 code reader and its pointing to lost communications so I think this is the proper next step...