Ships & Modules

I have no fit for the prophecy, but back in the past when I was in the same situation I found the Harbinger to be so much better. Equip it with Beam Lasers and go.
Drop MTU, Sniper everything and let the MTU do his work. If something get's close and 50m3 bandwith for drones can still add a lot of Drone dps. Though I seldomly used them. Most of the time Salvage Drones were doing their work. Cheap, easy and if required quite OK times to blitz L3 compared to the fact, that it's a cheap (not even 100M ISK) T1 BC.

It was something like this:
[Harbinger, Mission]
Heat Sink II
Heat Sink II
Medium Armor Repairer II
Energized Adaptive Nano Membrane II
Heat Sink II
Damage Control II

Optical Tracking Computer I, Tracking Speed Script
Optical Tracking Computer I, Tracking Speed Script
50MN Y-T8 Compact Microwarpdrive
Large Peroxide Capacitor Power Cell

Focused Modulated Medium Energy Beam I, Imperial Navy Multifrequency M
Focused Modulated Medium Energy Beam I, Imperial Navy Multifrequency M
Focused Modulated Medium Energy Beam I, Imperial Navy Multifrequency M
Focused Modulated Medium Energy Beam I, Imperial Navy Multifrequency M
Focused Modulated Medium Energy Beam I, Imperial Navy Multifrequency M
Focused Modulated Medium Energy Beam I, Imperial Navy Multifrequency M
[empty high slot]

Medium Capacitor Control Circuit I
Medium Energy Locus Coordinator I
Medium Energy Metastasis Adjuster I

Hobgoblin II x5
Hammerhead II x5

Costs 77M ISK.
If you later can use Heavy Pulse II, that can be a valid option as well. Until you can not use T2 turrets stay with the beam laser.

I don't remember the exact fitting. You don't need more tank. Move away / Approach with MWD if that is necessary, but in most Missions I just stayed where I was and depending on the distance change the Tracking scripts and ammo. Up to 671dps, though I would use Amarr drones these days. An AB instead of MWD is possible as well, but when I needed to get close faster to loot a mission item I found the MWD more handy.

format = EFT --> google

Would not recommend that. Use Amarr specific drones, who shoot directly into the resist holes. While Gecko looks cool on paper, in most cases it's not, especially because of Resist Holes. And if you loose one, you loose something. Geckos are very good in wormholes where NPCs have omni-resists, but anything else use the damage-specific drones!

On a prophecy you can maybe reach 550dps realistically with Amarr drones (2xHeavy + 2xMedium + 1xSmall) and beam lasers, but take into consideration, that drones loose a lot of killspeed because of their travel time and you will have to change drones depending on what you shoot and you will loose some from time to time due to aggro.

And you can only salvage afterwards, while Harbinger can do this easily in between.

I'm pretty sure the gecko's other stats are good enough it makes up for any resist holes, especially in lv2-3 missions. That said losing one is a 60mil isk hit. Plus on a proph you don't really have much bandwidth to play with so I don't know that I'd use one. I'd probably stick to 3x sentry drones instead. Plus if you can't use t2 sentries, faction sentry drones have pretty similar stats.

I'd try something like this, note there is some extra drone bay space so be sure to fill it up, I mostly use lights, but some meds might be nice as you do have room for omnis. bring whatever missiles for the mission. it might be worth using heavy missiles, but the RLML are just good right now. Also probably worth swapping the MJD for a MWD for most missions.

also harbinger might be a better choice, haven't spend time in amarr bcs in a long time.

[Prophecy, Proph copy 1]
Armor Thermic Hardener II
Armor EM Hardener II
Energized Adaptive Nano Membrane II
Damage Control II
Medium Armor Repairer II
Drone Damage Amplifier II
Drone Damage Amplifier II

Medium Micro Jump Drive
Medium Capacitor Booster II, Cap Booster 800
Omnidirectional Tracking Link II, Optimal Range Script
Omnidirectional Tracking Link II, Optimal Range Script

Rapid Light Missile Launcher II, Mjolnir Light Missile
Rapid Light Missile Launcher II, Mjolnir Light Missile
Rapid Light Missile Launcher II, Mjolnir Light Missile
Rapid Light Missile Launcher II, Mjolnir Light Missile
Drone Link Augmentor I

Medium Nanobot Accelerator I
Medium Auxiliary Nano Pump II
Medium Processor Overclocking Unit I

Garde II x3
Curator II x3
Hobgoblin II x5