I wonder how the designations will work out. In the Sandbox mission script, they will have to dock before any transitions are being made – sector-to-sector or through a jump gate – as they won’t be coded into the Sandbox to reposition when the ships do.
There are also other bits of code that won’t affect them (gravitational waves for example – an exciting addition we’ve not yet encountered). That could be explained easily enough, either fighters could have inertia systems installed to counteract gravitational distortions (or auto-thrust systems), or that their mass is small enough not to be impacted.