This is, I believe, the first time post-release tinkering has happened at Lucasfilm since the purchase. Up until now there’s been no “versions” of anything.
The series premiere movie of Rebels had a scene between Vader and the Grand Inquisitor added to it when it re-ran on ABC, and that version is the one on the S1 Blu-Ray/DVD set. I think the standalone Spark of Rebellion DVD release is the original version, but I don’t recall if that got a Blu-Ray release, too.