well, you could make the template easier than you think, but you have to establish a few things first, scale length and number of frets, whether the headstock will be angled or not, body style (where the fretboard comes to on the body), and your thickness' at the nut and at twelfth fret.
another thing to consider is laminating first and then cutting, less cutting to be done, and when you have a glued up blank its may be easier to true up the fretboard mounting face.
simply get all ur measurments together, get a large peice of paper, and start buy drawing ur fretboard face, thenfigure where you're putting the nut, mark it, measure to the 12th mark it, measure you're thickness at both nut and 12 and mark those, work out you're headstock angle and where the heel is going, and then connect the dots. cut it out glue on to some mdf, cut out around those lines finish it up with some sand paper, and ur done.
hope that helps
luke
*Edit* use a dust mask when doing anything with mdf, its carcinogenic