The only issue I see really (as long as you're willing to make your own motor mounts and such, which it sounds like you are) is finding (or making, if you're brave enough) an adapter to fit the 13b to the original trans, and locating the starter, as it looks like the axles on that trans will wind up in the same place as a Mazda starter. Didn't they make a rotary with a top mount starter at some point?
Clutch disk is easy, there are lots of places that will make them custom for you, with the Subaru input shaft splines and the Mazda diameter.
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