Every wave has had characters from the old canon. If you're assuming everything in X-Wing is current canon, then you're dead wrong. Kyle Katarn, Mara Jade, Ysanne Isard, Corran Horn are a few examples of characters most likely completely erased in the new canon.Disney doesn't care about the past. Only the future. I'm sure all pilots going forward will be in the disney canon. I could be wrong, but doubt it.
EDIT: Additionally, Disney wouldn't just decide they are only using characters from the new canon in X-Wing now . They've had content rights over X-Wing since they acquired the Star Wars license. And they are still using characters from the old canon (Miranda Doni is the first that comes to mind from the most recent wave).
I'm not saying everything currently in x-wing is disney canon. I'm saying going forward. Disney didn't have new material when they gained the rights. Would have been dumb to just stop making product until a new canon was established. Now that the ball is really going they have no need for the EU. Hence I believe that they'll stop going to eat for material. I am not sure but I think the rpg just rolled into the new canon. X-wing can't be too far behind.