the nano emitter gun needs electronic circuits and with ir that is super late game makes nano bots not very useful by that point

I changed the emitter to a combination of copper plates, chassis and gear wheels.

also nanobots doesnt seem to what to use the 'ammo-nano-constructors-copper'. i changed the recipe that gave them to give the normal ones and its been working for me now

nano bots is coded for the normal constructor ammo only it doesnt read that new ammo

Yes doesn't work for me either with the new ammo.

Can you retest? It works now in my sandbox for for both constructor and termites