I think the question is, will a bent frame effect the NEW engine? And it's a good question. Never heard of a get-off causing such a problem, you must have hit pretty hard. My black 91 suffered a horrendous high side (onto the left side) without any major damage beyond the plastic and front sub-frame and went an additional 130,000 miles with the original engine before a crack developed behind #3 cylinder which let the coolant OUT (not into the oil/crankcase.)
Best bet will be to pull the engine, watching for misalignment as ya pull the long bolts. And, of course, when putting in the "new" one. There is an adjustable frame link on the lower left side. Mark it closely before removal so you can check to see if it all goes back together per original. And, do keep us poSTed on your progress.
BTW, we know of more than a dozen cases of the #3 cylinder external crack. I've never heard of an ST leaking the same way as yours. Anyone else?