You can't topswap without a tune, so just forget that. It's not even an option for you.
You can't swap in the GTP motor without a tune, you can't use the GTP's PCM because it is set for the 2.93's, and you can't use the GT's PCM because it is set for the 3.29's, so forget that as well. As far as your fuel pump questions go, the pump itself will work. It's the fuel rail and injectors that are different. The pump will work until a point where you are making crazy power, which I doubt you will reach so you should be fine with the GT pump for now.
What you probably could do, is take the motor AND transmission out of the GTP and put it in. You will also have to take the fuel rail&injectors like I mentioned and swap those out as well...there will be some more little things that you need to do but I can't think of it off the top of my head....And I doubt you're going to get many responses by making several threads about the same thing, just give it time