Stealth is totally an option... a gamble though. Most seasoned players will not be phased much by stealth, and the sacrifices required to achieve stealth will leave you weak against an enemy with good scanning habits. I feel like going stealth is mostly about expecting to encounter greener players. The vets... once they've scanned you out, their lock-on turrets will usually keep you pegged and keep pounding you.There has to be more then this? Maybe its not about in the moment decisions then? Or is stealth even a play right now outside of a prearranged fight?
There are other decisions that get made at the engineering level; armor vs shields, fast shield regen vs high capacity, etc. Range isn't really an option - choosing not to have at least one high-range weapon (ie missile-beam or at least cannon-beam) is more of a fail than a decision except in very specific circumstances.
Operational range is a fairly important decision (short-range with standard engines or overdrive, versus long-range with jump). Jump systems are expensive, bulky, and consume lots of power; they can seriously weigh your ship down and make it too expensive to lose. Overdrive is more easily accommodated, and still lets you access the nearby star systems in decent time (and without either humping the mouse button or splitting up your jumps into a chain drive that make you far more vulnerable to interdiction). The considerations extend to combat, because in combat overdrive can be an asset used to outmaneuver ships and even outrun missiles, while jump is only useful for a quick getaway, and that only if the opponent has no jump inhibitor (and this is compounded by longer-range ships using chaindrives to cross distances that would be ugly even for a standard jump, because inhibitors affect all jumps at once, so longest range becomes most mobility vulnerable in combat). Operational range is an area where defensive vs offensive strategy can actually yield a slight combat edge for a more defensive (short-range) strategy.
There are dozens of relatively meaningful decisions to be made at every step of design, deployment, and combat. I'm not sure what the "what choice do I have" is specifically referring to, honestly.