Electrics, doncha just love 'em ?
This is the wiring diagram for a 3 connector flasher unit as used on my Elan which should help as the terminals are clearly marked. I know you're on a new build so everything should be clean and tight, but I'd still go around and check earthing wires to the lights/speedo/etc. I can't recall if the flasher unit itself is earthed without going and looking at the car but as it's bolted to the steering column I suspect it is, although whether it needs to be I don't know without more head scratching.....
The other thing I suppose is the rating of the flasher unit - how much wattage it needs to click into action. Are you using a modern design unit or an olde worlde type ?
Brian