Huh, this guide actually seems pretty well matched to my experiences. Just a few comments I'd add...
* There are cases where multiple ion cannons makes sense; most notably on a non-missile-focused Aurora. They're efficient enough to help with anti-shield, and a battery of four of them can reduce return fire to very nearly zero once shields are down.
* I'm surprised at the relatively high rating of the HIL; in my experience, the Tachyon Lance consistently outperforms it even accounting for the higher OP cost. (The possible exception here is in turret mounts - it's hard for auto-fire to keep a tachyon lance burst from a turret on-target. Then again, it's also hard to keep a turreted HIL on-target, so - possible exception; I'm not sure.)
* Hammer Barrage is probably deservedly panned for the context of a tournament environment, but there is one thing it's got over every other large missile: raw DPS. If you're going into a fight knowing that there's one big target you'll want to take down fast - i.e., you're assaulting an enemy battlestation - the Hammer Barrage is really good for that. (At least if the ship with the hammers is under player control; the AI simply will not use the full DPS of the weapon.)
those are my own opinion but:
*slot can be left empty to save OP for other hullmod. And if I'm looking for a close ranged anti-shield weapon (when I cannot use light machine gun alike), ir pulse can be considered. Ion cannon doesn't have much damage potential when ir pulse--has same OP cost, better flux efficiency, better DPS, same range. Try it on your aurora(aurora's medium missiles is irreplacable, however small slot can be worked around)
*you might already witness AI turn their tachy 5 degree when firing and missed rest of the beam damage. Still large energy has some serious competition due to how percious the slot is, but tachy cannot completely replace HIL due to: anti-phase, having better AI control, better DPS.
*while yes its DPS advantage is described as better reload speed, and didn't mention much(I'll notice the author). I used hammer on my SO champ and it does work like a charm. Still Large missile is precious as always, and long range missile's support ability is non-questioning(which only fighters can compete due to never blocking line of fire). Minmaxing does sacrifice gameplay in some degree.