The courts may (still) be independent, but it feels like they are pointless because the government just wholesale ignores them anyway. If the executive branch doesn't enforce, or selectively enforces court judgements, you may as well shutter the courts.
I would say if you ever want to prosecute these people, then you're going to need a mountain of evidence. Having all these court decisions they flagrantly violate for 4 years is going to great evidence at their trials. It may not give us much solace now, but all of their defenses are going to rest on intent, and it's going to be helpful in proving their state of mind that they willfully defied federal court orders, lied to judges, etc. Because they control all the evidence of their own criminality within the Executive branch, we should expect a lot of it will be destroyed when they are gone. Establishing independent records now through court proceedings will preserve those records past the administration end date.