Known Bugs

[Suicide Junkie]

You may have been seeing a ship with multiple guns at different states of reloading. One gun firing while the others are still reloading.

Either that, or a typo in your mod.
If I were to guess, its either one of the components in the family with a typo in the fire rate, or that you allowed upgrades from ship-NSPs to fighter or troop NSPs which fire faster.

The AI definitely *does* follow the reloading restrictions, or it would have been noticed on PBW years ago.

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PS:
Having looked at the savegame you posted, and presuming you mean the last battle in the news list I can tell you what your problem is:
1) You have *no* defenses on those ships.

The enemy fleet fired NSPs in all three rounds of the post-contact engagement, yes. They fired them from different ships.
They *did* however, fire Polaron Beams lots, but PPBs reload in one turn. They did one of two things:
A) Knocked out your level 1 phased shielding in one or two hits, followed by lots and lots of hull hits.
B) Pierced your decent amounts of normal shields, doing hull hits right away.

Basically, your designs didn't stand a chance, and the enemy's NSPs really didn't help in that battle. They slaughtered you fair and square with their PPBs.