Apple won in some respects but lost in others, as pointed out by the article. Who knows the true motives behind Epic Games, but in my view it wasn't so much greed in thinking they brought so much to the Apple store they could essentially force Apple to bend to their whims so they could keep more of the money, but that they saw Apple's policies as unfair and monopolistic (as do many, many other devs and companies, btw) and were in a unique position of being able to challenge them, unlike most others.
And personally, I think Apple's just upset now that, as a result of the lawsuit, they're likely going to lose significantly more money than they would have had they just agreed to be reasonable from the start because, again, it was in fact determined they were being anti-competitive. So now they're just spiteful against Epic, and punishing them, which to me only serves to further show the problem and the need for them to be reigned in and for more lawsuits and enforcement. They're wielding their monopolistic power of the app store simply to try and squeeze Epic at this point.
What will be interesting--and was my first thought upon seeing this, so I was glad to see it mentioned in the article--is what effect this will have on customer's choice of platform in the future. How many people will switch to Android to be able to play what is a very popular game, and what will be the effect of that on Apple's profits? I doubt it even make a noticeable difference to their bottom line, but it'll be interesting to see if it backfires.
And by the way, I have no love for Epic Games, either, so I'm not by any means influenced in my viewpoint here by my opinion, one way or the other, of the company, but rather what I have seen as a big problem for years finally getting some attention.