Mechanically there will be the obvious differences in gearbox, driveshafts, brakes, suspension, but the difficulties will most likely be in the electronics side due to the immobiliser.
The immobiliser in these cars is spread between the CEM (fusebox under the glovebox) and the ECU, so changing the engine and fitting a T5 ECU will require someone to hack the immobiliser so that the correct codes can be programmed into the ECU. This can be done with the 2.0d engine ECU, as this variant often suffers from immobiliser issues and someone has done the hack and produced tools to do this, but I don't think anyone has done it with the T5 ECU.
If you can't reprogram the T5 ECU, then you will also need the CEM from the donor car, and the ABS control unit (as the serial number from the ABS is used as part of the encryption of the immobiliser codes.
If you change the CEM, then you'll also need to swap the steering lock mechanism, climate control ECU, infotainment display and stereo/amps, as they are all coded to the CEM. There may be other electronics that will need swapping depending on the configuration.
So in short, I think Teddy1975's suggestion of buying a car that matches the configuration you want is the only practical option.
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