Of course it is. Cleaning up a place that started thoroughly compromised while trying to keep it running the whole time is not going to be easy. The only way Musk could have done a thorough cleaning right away would probably have been by firing everybody and replacing them with all new people, and as far as I understand he would not even have been able to do that without getting mired in endless lawsuits and possibly wrecking the whole thing permanently.

As things are I presume a pretty large percentage of the people working there are still quite well affiliated with the enemy camp, and doing what sabotage they can, especially smaller stuff they think they can get away with without losing their job, when they can even when they will not get orders from outside, just because of their own convictions. And because they think they are "saving democracy"...