Eh not sure what your specific concern is.
The game starts out with pirates for fodder, then other factions, then [REDACTED]. By design pirates are relatively easy to kill so you have a way to get started with gaining XP and money. What this means is that yes, just about anything will work against them. As you move on to harder content, yes, you have to figure out better loadouts for your ships, better strategies, and get better gear to keep winning. That's how most games work. Getting to the end boss is generally designed to require the player understand the different game mechanics and challenges that the game throws at you.
I don't know what you mean by you save scum and thus spoil the game. You save scum to learn more about how the game works. Then you apply that knowledge to get better equipment, etc. So not sure where the issue is, or why you bother to delete and then start over.
There are some ways to "teach" the player game concepts, and those are gradually being introduced in each new version. The game also has lots of hints, since as the danger level of other fleets, etc., to tell you if you're about to get into a hard fight or not.
I think probably the more difficult concepts to grasp relate to fleet vs fleet combat. The role of low tech vs high tech, hammer vs anvil, flanking, crowd control, aggro management, etc. Also, since you can directly control only one ship, how to be the most effective with your ship, relating to the fleet.
On the latter point, in most games, you get to directly control all the units. You directly tell them to do something and they do it, even if it means sending them to their death, etc. In this game, however, you give more overall "objectives" or "suggestions" to the other ships. They don't do exactly what you tell them to do. So part of the issue is that a lot of times, what the AI of your ships are actually doing is not transparent at all. This makes it more difficult to figure out how to make fleet vs fleet combat work. This may be why you feel okay with smaller fights, but once it gets bigger, your fleet starts not doing well and you don't really know why.
This is part of the learning curve with any game you play though, figuring out how the game works. Eventually you *do* get around to fielding efficient death fleets that go around stomping on other fleets, but that takes time to learn and to get there.