To make it as simple as possible. The ECM deals basically only with the engine and it's sensors. All the rest it managed by the PCM. Then there is a data link between the ECM and PCM where they exchange informations. OK?
The transmission, AC, CC, Charge field for the alternator, the dash just to mention a few that come to mind are all directly powered and controlled by the PCM.
That's why I say it's confusing that also the APPS is off since it's a ECM only sensor. Now you say that you were monitoring the APPS THROUGH the PCM. That makes sense! Bingo, all the problems you have are now directly related to the PCM. See what I mean?
Anyway, before you try to buy a new PCM, open it. Maybe it's something really simple like the one in that other thread. Sorry I don't have any schematics about the internals of the PCM. They simply do not exist...
I've never seen this problem ( AC clutch ) before so I don't know where the "AC clutch transistor" is located. Off my mind... I think that almost all power transistors are located in the centre of the PCM.
Marco