http://www.best-decals.com/ should make you Jackson logo, email them.
Then just find someone who will re-finish the headstock for you and put the new logo on. Shouldn't be expensive. Maybe it would even be possible to remove the clear coat from the headstock and remove logo, than put new logo on and re-clear coar. That'd be even easier.
Replacing bidning will be very expensive and it would require a total re-fret, possibly sanding of the fretboard and refinishing back of the neck..which would result in refinishing the full guitar if you'd want to make it look nice. Or you could just leave back of the neck unpainted (like "Wildchild" RR), but it will still be very expensive and not worth/money/time the effort if you ask me.