I did a brief bench of MOS and AOS3.9 on the A1200.
You can read the result here:
http://via.i-networx.de/bench_en.htmlThe A1200 with the Blizzard running MOS is quite useable. The ppc is not the fastest you may dream of, but it does the job quite well.
And a Powerup with 68040 is not that much more expensive than a 68060 card. So I'g go the ppc route. MOS will evolve, also OS4 will be available for that boards. The 68k OS is a dead end (well a quite nice dead end at least).
Cheers