For the most part, the article speaks for itself, though I did want to add some elaborations of my own.
At first blush, Marta Velasquez, the game's protagonist, seems like the stereotypical Strong Female Character (tm): a misguided attempt to make an admirable female character by having her embody all the traits of toxic masculinity. What becomes apparent as one plays through the game, though, is that we're not supposed to admire these traits, and in fact the game spends a fair amount of time dissecting and criticizing toxic masculinity through her. Velasquez is a hazard to everyone around her, carelessly blasting her wingmen, sabotaging her organization so she can fly more missions, constantly threatening her coworkers with violence, and the world reacts accordingly. Her coworkers fear and despise her, her self-centered attitude gets in the way of her organization's mission, and she largely spends the game digging herself into a deeper and deeper hole. She is, at best, a terribly broken person in desperate need of therapy, only tolerated by those around her out of pity or necessity.
That's doing quite a bit with a female protagonist for 1994, and a hell of a lot more than any contemporary games I can think of (Metroid 2 and Super Metroid maybe come close).