the e38 controller will make the engineers happy (as it is what is in the latest commodore)
the tunes that are used are normally stock
as long as you run new "FACTORY" catalytics and not aftermarket ones it should pass.... ask BAZ passed with flying colours... now i have heard a few fail here and there...
what i have learnt (but this can add up) is prepare to spend a little bit more money (and this will help for track days) and purchase a autocal or the likes and this will allow multiple tunes. Then have your tuner first up dyno you car for E85... no emissions
passes with flying colours.. then go back at a later dat and have a 98 and e10 tune done... the boxes can hold 4 tunes so u can have your e10, 98 and e85 tunes there and can flash them back and forth depending on fuel used (e85 for track days - bit extra HP) and e10 for you sunday cruising (as it is easy to purchase any where)
just my opinion