1. The strength of your trifecta relies on your load out choice
2. I don't know how you got this impression because I reinforced my point over and over again in each ship but
Trifecta reliability refers to the total duration of time a crew member is on a gun, not how better a trifecta is on a ship
if you're an engineer, you would stay on a guns for a little longer because you know that the balloon or hull is only a few steps away from being repaired
(that is all I meant, if you referring to anything else then it was a figment of your imagination)
3. The flaw of the junker is that it requires a bit of piloting to angle the ship to get all guns shooting, you have to angle your ship every time you want a trifecta much like a galleon. This limits load out choice if you want all guns shooting and it wastes a lot of time getting into a favorable position.
Not only that, the junker has very good acceleration but very slow top speed. Junkers, in this manner, excel at sticking to point or limited space and defending it. A ship that needs to travel quite a distance is not going to be as effective as with any other ship.
The main weakness of the junker is the balloon, simple as that. It is very easy to hit, easy to pop, and digs into the hull eventually killing it. It will keep it grounded with all guns out of arcs. With such a blaring weakness, you can see why it is not as common.
4. In my scenario, an engineer has the choice to either pressure the enemy by shooting or walk a component to repair it in time. On a junker, a component can simply be maintained in reloading time because the components are so close to crew members. Of course you probably want to be fixated on important components if broken, but the guns are not too far a distance away. On a mobula, if you're shooting as an engineer, you have to walk quite a distance to repair the turning engines.
5. You probably don't want a gunner on a junker. My consensus is that gunners are specialist classes that are only there to manage a mine launcher or a lumberjack. If you do have a gunner on the bottom deck, then the hull engineer is not too far away from the bottom deck to help maintain fires.
6. Please define your points in a concise manner. The worst thing you can do is write an argument going in several different directions and not to mention, in a wall of text. You are not being graded all the time but it's just a word of advice. It makes it very hard to support the points you make.
(this is referring to Kain Phalanx)