I don't think i'd leave a gap. If anything I'd put a slight chamfer on the two boards, maybe an eighth inch, and glue and clamp the boards together. After the glue dries, then fill the chamferd gap with bondo and sand it out.
Bonding hardwood together like this, i just use biscuits or dowels and then glue, clamp and sand. I prefer biscuits since dowel alignment is tough. 1/64" off is noticable.