It would be better to try to fit this thing into a Fox or Quantum, or even an Audi 5000 Quattro. Even then, there are so many sensor that I don't know if it would still be feasible to go aftermarket control. It just wouldn't fit into a transverse setup; the transmissions couldn't take it, the bolt pattern does not match up, and most importantly it wouldn't even fit as it is too wide. That is the reason we use VR6s and not V6s, as the common 90 degree V6 will not fit between the firewall and radiator support. An on the electronic and trans side again, you'd probably have to track down a european ECU as no US Touareg/A8/Q7/A6 has these bolted to a manual trans.
That said, the most feasible way I see to do it would be mid mounting w/ a built FWD audi/vw trans. Definitely not the answer you wanted, but . . . it would be fun, granted that's if you survive the wiring and fabrication crucible that project would become. Sorry if I'm not sounding very serious, but such an undertaking as putting such a new, technologically-advanced engine in to a small, lightweight platform as the Mk1 is a true 'go big or go home' project.