I've had a few 'dealings' with double-sided triangles in my short time here modding for BC.
The first thing I can suggest is to check your ship model for duplicate faces and 'unwelded verts', if possible. That, I believe, can sometimes be the cause.
The other problem I found when making a space station, is how the damage resolution is set up in the ship hardpoint and/or the ship script file. For the station, the value was too high, or too low in the ship script; I don't remember which.
Ususally, a few double-sided tris here and there have no negative effects but too many does cause issues.