Just for clarification here, but the solenoid pack connector I was refering to is the one located on the solenoid pack. The newer style (high impedence) should be Beige/Natural and the older style (low impedence) is black. The connector, which is part of the wiring harness, will always be black.
It sounds more like the Range Sensor is out of position. Maybe when the remainufactor installed it, they did not align it properly. Check that by...
1) Setting your emergency brake.
2) Placing the shifting in Neutral.
3) Check the MLPS alignment marks.
4) If they do not line up, loosen the bolt to the sensor and rotate it until they do. Take it for a test drive and see what happens.
5) If the marks do line up, then I would suspect a bad sensor was used during the rebuild process.
Having the wrong solenoid pack in your tranny will keep the TC from locking properly, but will not cause the other shifting issues you described. But, if you measured only 1.5 Ohms on the solenoid, then I would have to say that they either sent you the wrong tranny or installed the wrong pack during assy.
If you don't mind sharing... Who was the company you got the tranny from. Not for bashing purposes of course, because we all know that everyone is due a mistake or two. But I would like to follow this one, just to see how things work out.
Check that range sensor, but you are gonna have to do something about the solenoid pack.
Oh! And to answer your questions...
1) I've pretty much covered that
2) No, this cannot damage your PCM
3) Well, I don't about offical, but TransTec is a pretty well respected company.
Here is a PDF that I have refered many people to. On page three, it has all the information you are looking for.