Make sure that in the Sov's hardpoint there are are quantum torpedoes and phased plasma torpedoes set to "0". Should look something like this:
Torpedoes = App.TorpedoSystemProperty_Create("Torpedoes")
Torpedoes.SetMaxCondition(6000.000000)
Torpedoes.SetCritical(0)
Torpedoes.SetTargetable(0)
Torpedoes.SetPrimary(1)
Torpedoes.SetPosition(0.000000, 0.020000, -0.040000)
Torpedoes.SetPosition2D(64.000000, 20.000000)
Torpedoes.SetRepairComplexity(3.000000)
Torpedoes.SetDisabledPercentage(0.750000)
Torpedoes.SetRadius(0.100000)
Torpedoes.SetNormalPowerPerSecond(150.000000)
Torpedoes.SetWeaponSystemType(Torpedoes.WST_TORPEDO)
Torpedoes.SetSingleFire(0)
Torpedoes.SetAimedWeapon(1)
kFiringChainString = App.TGString()
kFiringChainString.SetString("")
Torpedoes.SetFiringChainString(kFiringChainString)
Torpedoes.SetMaxTorpedoes(0, 300)
Torpedoes.SetTorpedoScript(0, "Tactical.Projectiles.Custom.PhotonTorpedo2")
Torpedoes.SetMaxTorpedoes(1, 0)
Torpedoes.SetTorpedoScript(1, "Tactical.Projectiles.Custom.QuantumTorpedo")
Torpedoes.SetMaxTorpedoes(2, 0)
Torpedoes.SetTorpedoScript(2, "Tactical.Projectiles.PhasedPlasma")
Torpedoes.SetNumAmmoTypes(3)
App.g_kModelPropertyManager.RegisterLocalTemplate(Torpedoes)