And, yeah, it's a fair point about the loadout options being fairly limited. Kind of makes me wonder about making the front small hardpoint - or just one of them, even - medium, hmm.
That would be really nice, graviton/ion are interesting support options that don't look too overpowered and the improved pulse laser would also be a decent candidate.
It does seem like the ir-autolance will be the go-to option in those medium slots from now till the end of time given they are designed to be a cheap and very specialized anti-fighter weapon which is exactly what you want when you already have flares.
Don't see why should Apogee struggle against fighters now. Cheap, extremely good shields, flares to take some heat off, lots of unused slots/flux.
PD laser spam can double dip from advanced optics on HIL, and HIL+2 tacs do a number on incoming fighters anyway.
As mentioned, IR pulses in the back are always an option and can also add ion pulsers.
(plasma in front is definitely not the only option, I think in most fleets it's outright bad compared to HIL if you aren't using SO)