$200 sounds like a lot, but maybe the rates have increased over the years? The last time I flew with my bike, I think I had to shell out $50 or $75 extra in each direction. If another airline will do it cheaper -- or without a charge -- then that's an obvious solution.
But here is another perspective: when travelling, be prepared to reach deeply into your money belt. Think of $400 per person as a surcharge to have a wonderful cycling adventure.
It might be less expensive to fly to Amsterdam or Frankfurt, and then take a train to your starting point.
If you do fly to Zurich, save yourself the effort and bother of cycling to the city by taking a train. I wish I had. I found the route confusing, especially when riding while a bit jet lagged. Riding in Switzerland became a lot more interesting after I exited Zurich.