Welcome overkill..... You know thats a great name for a Q45 owner since thats really what they have to do in order to stand it.....
1. Do you hear any humming from the rear of the car... Sounds like the fuel pump is going to me, or you may need a new fuel filter...
2. Sounds like the MAF to me... First wiggle the MAF connector at idle and see if it changes anything..... Check out
http://www.q45.org for more info on that, that kind of problem is pretty well documented.
3. Wow great having a used transmission ready to go!!! When I had my old Q and it was really cold and I didnt let it warm up, it would hesitate for a second before shifting... Id try getting a transmission flush and see if that helps.....
How many miles are on the car?
Welcome again to our forum1!!