I think it's because Maurice opted to update his early Boxster with all the upgrades (newer transmissions, relay, cables, etc) to make it function just like the 00-02 models with the 03-04 top, so he didn't just try to figure out how to time it with the B switch. If you PM him, he might be able to give some advice. He truly knows the tops inside out, and I couldn't have done the swap without his know how.
Mike, you have stuck around these Boxster forums (a good thing) long after you've sold your last Boxster. You must miss the car...when you getting another?