Companies have always tried to take down sites hosting free anime/manga, and new alternatives always crop up when a major one gets taken down. I doubt much will change even if this is the case.
Regardless of how severe this is, I completely agree about the flaw on the policy with how few series (especially good series) are officially licensed or available with ease of access. Crunchyroll is absolutely abysmal with how few series earlier than the 2010s are available and how so many are region locked. DVD producers such as Rightstuff and Discotek have a better catalogue, but stock is often low and the prices are often very steep for what's offered. Viz and other manga distributors also have fair limits on what's available, though nowhere near as bad as official anime sources. Let's take Ashita no Joe as an example. The manga has never been published officially in English and only the 2nd anime was released officially via Crunchyroll, meaning many would outside of Japan, Italy and Latin America would be deprived of this classic and make it even more obscure in the west if forced to go through only official platforms.
One example of how licencing and copyrights can completely screw up access to a series' official release is with Legend of the Galactic Heroes. The licencing of it without actually releasing the OVA series and thereby forcing attempts by others to show it being taken down via copyright makes the only anime available officially the remake, which has the same problem with how a lot of film companies are starting to make finding the originals of several films difficult in an attempt to replace them with remakes.
Tl;dr Fuck going through the official platforms if the official platforms aren't willing to offer the quality of selection as piracy. Basically the same problem as with Nintendo.