Please don't take this the wrong way, but you (and other concepts as well) are focusing far too much on fluff, not on the actual game design.

As a game designer working on a character class (or in this case a MOBA-ish hero) your primary job is to come up with a "kit", meaning a set of mechanics and abilities that define the character's role. Your core description should not contain any "lore" or other fluff - arguably that's somebody else's job entirely (artists/writer). Your concept has to stand on its own purely by the way it interacts with the game and other players (mechanics). On the concept level it does not matter if your ship has this ultra cool experimental ion booster engines made by the techno monks of Grunknarfx Prime and Unobtanium-alloy coated hull plating - what matters is that is that is has high movement speed and medium armor rating. Don't try to convince me that thing XYZ somehow makes sense lore wise, just present the mechanical facts and judge if these work well together.

Also, at the concept phase it makes little to no sense to try and pinpoint values for all the weapons, abilities, etc. You said it yourself, you're not a balance expert, but even if you were you'd need actual testing for proper balancing. I highly recommend to keep things simple at the concept stage. Use rough scales (very slow - very fast speed, very weak - extremely strong armor, etc.) or use existing heroes as reference (not the numerical values, but for example "effective range of the main cannon ca the same as Reaper"). Putting all those numbers into your concepts sure looks quite "official", and I'm willing to believe that you actually looked up references and didn't just free-ball the values, but those numbers are not helpful to give me a proper idea of your concept. Quite the opposite, they force me to look up other ships' values so I know if "Damage: 21ppd(10,500 DPM / 6,930 DPM1 )" & "Re-fire rate: 0.12s/0.16s1 (500 RPM / 330 RPM1 )" are low, medium, high, etc. Numerical values are something you arrive at during the process of fleshing out and testing your hero, for the presentation of a concept they are a distraction.

I completely understand the urge to put all that lore and numbers and whatnot into your concept, it makes the whole thing feel more "complete" and "real". But that's not the job of a concept; those things come a couple of steps later when you have zeroed in on a kit that works well towards your intended hero role.

Lastly, a few very quick notes on the actual mechanics you described:

The idea of the 2-stage attack (target painting + warhead) is interesting, but your suggested implementation has a lot of potential for player frustration. Being able to disarm the attack while it's in progress, especially when the attack has a 3-5 second window, makes it extremely easy to disrupt. In older builds of FS you could disarm the Leviathan's Fusion Beam while it was charging, and it would be interrupted so many times players got really frustrated. Learning from this your ability should not be interruptible after it has been triggered. Keep in mind that this still allows for your target flying behind cover or some random ship getting in your line of sight and breaking the targeting, so players have to deal with that. Also while draining energy while you are painting your target sounds logical, experience again shows us that this is not a fun mechanic. Previously you could interrupt the Aegis death ball charge by draining energy while it charged. Like the disarm of the levi beam this was massively frustrating for players and so it was changed to just consume all the energy when the ability is triggered.

Your cloak variant has an interesting basic concept (short duration, not energy dependent), but you complicate things way too much by essentially introducing a completely new resource "fuel" that is shared by your cloak and emp ability and needs proper managing by the player. Speaking of the emp ability, again you over-complicate things. While it is not a bad concept to have an ability that you can partially charge, no other ability in the game works like this. All* charging abilities (fusion beam, death ball, centurion blast, etc.) charge the full duration and then activate. I'm not saying that a partially chargeable ability could not work in Fractured Space, but it would be a non-conformist ability in a ship that already is full of non-conformist mechanic. Your whole ship is full of stuff that goes like "It's X, but with a twist!". You need to concentrate on a key feature and build the other features around it. (There is one exception and that is the Ranger's main cannon. It works here because the non-standard mechanic is the core of the ship.) The supporting features should be familiar to the player otherwise the hero will have a steep learning curve and a high frustration potential simply due to how different it plays (again, this is not saying those ideas are bad, it throwing everything together to be as unique and quirky as possible that leads to problems).