I do not follow Fender or Yamaha or many other brands as they just do not fit me. That's why I didn't remember that it is a neck through.
But my main point was that as it is a fine instrument, I would keep it as it is. Self made modification may be fine, but there are other possibilities, too. A skilled luthier can make a good fretless version of it. Same dimensions and everything, the playability between those two could be very interesting. And a good luthier may suggest some tiny modifications that support the fretless sound, too.