I've done very little hardpoint work with ship models. What I was taught is to just take an existing model, import it into Max or Milkshape, or whatever program you have, delete the model itself but keep the hardpoints and damage points if you want those too, then import the model you want to hardpoint.
Begin to re-position, one by one, the hardpoints onto the model you're working on at the places on the model you want them to, keeping note where you put which hardpoint, such as hardpoint 1, hardpoint 2, and so on.
You'll need the SFC Hardpoint editor as well, which you have I'm assuming.
Which ship are you trying to complete, just out of curiosity.