You have some mistakes in that list.
The Serapis's weapon config is fine. It's bad because it's made of paper.
The Tauret has a better profile than the Herc 2 from the back sides and front and it's got more missiles. It's not terrible compared to the Herc 2, but it does suffer from low weapon energy.
The Boanerges is worthless version of the Ursa - it's barely any faster, it's just as cumbersome, it isn't as well protected, it has the same capacity, meaning its pertty much the same all round just ****tier. The only bombers worth flying are the Ursa and Sekhmet. I like the Athena too though it isn't really a bomber.
The problem with the Thoth is that it can't do anything BUT dogfight.
Wait, I thought this thread was about weapon configurations. How did it turn into "which is your favorite fighter - redux" ?
The Serapis being made of paper isn't 'in combat terms' any different to any of the other lights (*depending on what you class as a light, for me that classification is the stealth fighters, loki, thoth, horus, perseus, uly, of these there is a clear and complete winner, Perseus has more secondaries and a better setup for it's primaries), especially in the hands of an experienced pilot (*If I'm /serious/ about winning a TvT, and am not playing in a +150-350 ping environment, I will fly a Perseus, however I will often advise new pilots away from fighters that light as they're /very/ unforgiving), but the Serapis' second primary bank is too wide, it's ONLY useful against big targets, or targets that have a wide frame (like the other vasudan targets).
The Tauret does not have a better profile in a dogfight than a MK2, sure, it's thinner head on, but in an actual 1on1 (or more) situation, unless the Tauret pilot is better than you, you will see him from above or (most commonly) below most of the time, same weakness as the Myrmidon (Model designers take note), this means they present a HUGE target, the Tauret (well, vasudan fighters in general but the Tauret is the worst offender of all the fighters in the game) is ridiculously long AND wide, it's just thin, one of the redeeming features (compared to terran ships) that most Vasudan ships don't carry is the fact that there isn't any important subsystems 'easily' hittable in a furbal, the Tauret also breaks this trend by having it's sensors in a very vulnerable position on the front of the ship (which you can dump rockeyes into very easily if you're skilled enough).
The Sekhmet is a bit of a mixed bag, it can't decide whether it's an ultra heavy fighter (Ares competitor) or a bomber, arguably good in multi-role but never used in the campaign, the Sekh also has subsystem weaknesses available on the front of the ship, it's banks secondary banks aren't as useful as a Boa (double shot helios), it doesn't have a turret, it presents a bigger profile front on than an Ursa (smaller from above but again the turret is good for that situation) - It would be my third choice as a bomber, but for missions where I'm likely to have problems with fighters I'd rather have the Ursa, at least then I can ram them and be SURE I'll come off the better, for missions with no or few fighters - the boa just wins because it can carry 10 helios and shoot them all off in pairs.
And you're quite right about the thoth as well but it does deserve an honourable mention since it IS the best ship in the game at that job (*note for all the light dogfight missions you might ever fly).
The only real way to make use of the useless weapon alignment in the Serapis is if you're on a mission where you need to de-turret stuff, you use the wide bank for a maxim and the small one for something anti fighter.
I generally try to stay away from bombing stuff except when a mission forces me to :<
I'll be happy to don a maxim in a secondary bank and rip all the turrets off a ship for the bombers but actually flying around in a brick isn't my thing

Oh.
The Sekhmet does have one good purpose.
3 banks of trebs + maxim = ultimate ranged disarmer/cruiser killer.
I know I followed up on the derail but yea..

The classic coop combos are basically;
Ares Maxim/PromS(or Kayser depending on your taste and the difficulty), Tempest/Trebs. - This setup, when available is THE setup to take into a mission you're trying for the first time, it's the most versatile.
Perseus Kayser/PromS/Tempest/Tempest - ultimate dogfighting machine >.>
Erinyes Kayser/PromS or MorningStar/PromS(Kayser again depending on pref) Rockeye/Tempest (THE setup to take as a host or low ping pilot to obliterate entire wings of fighters, tvt or coop it's the highest firepower setup in the game, the rockeye are for tactical disarming (you swoop in onto a target but not enough to make them turn away and leave rockeyes almost at point blank range heading for their sensors/weapons depending on the ship).
If you're against the AI, especially on lower difficulties and you want to be a heavy anti fighter type, more or less anything (herc mk2/ares works best tho) with MorningStar/Kayser/PromS with Harpoons and Trebs.
For bombers it depends a lot more on what you're doing and what's available to you, but the reason I like the Ursa over the Boa and the Sekhmet, especially for higher difficulties where you can't afford to just hold down control with a maxim vs a fighter, is that the Ursa gives you two banks - the tri-bank gets a maxim and the dual bank gets a proms or kayser (can it carry a Kayser? I forget), when you're in a bomber though unless you have some mission critical need to take something else(normally this means trebs), you should always take max banks of bombs and rely either on your wingmen or some good energy and shield management with a little bit of jinking to get you into a position to deliver them.
I'll shut up now cuz that's waaaaaaaaaay more than I originally intended to say in this thread lol