Well, i have good news and bad news...
I got the TCU here and then hooked it up and hooking it up like this does make the U0101 code disappear so that's the good news but that's kinda where the good news ends.
What I had not noticed earlier is the TCU communicates on a different CAN bus to the ECU, it isn't on the CAN bus that comes out to the OBDII power. That means the ECU is acting like a gateway for the TCU so that now means there's going to be way more than just one message to send back and forth. I would have to implement some likely Toyota specific protocol to make the ECU happy.
But in theory i have what i need here to implement it, but i'm 90% sure that on the OBDII module selection screen there will always be a A/T module that pops up. Is that a deal breaker for CARB if it's there but reports no faults?