There really aren't; as that article says, the state was already doing what the GOP sued to require, and those ballots are both small enough in number and likely enough to favor Biden that even saying there are "questions" is overblown.

That was already the policy and was happening before the ruling, the ruling basically just formalized the policy. Doesn’t change anything.

They’ve been keeping those ballots separate and their are 1k of them. They don’t matter.

I've been told that every vote matters

They were already doing that; and even if they weren't, it would not change the outcome.

Remember that when it comes to non-emergency motions, courts are unlikely to grant the form of relief requested when doing so would be moot.

They don't matter. Biden's margin in PA is without those votes.

It’s tantalizing and, in my opinion, overtly political that the Washington Post uses the phrase “enforce segregation” here. This similar story from Reuters says “separate”:

https://mobile.reuters.com/article/BigStory12/idUSKBN27N030