Eh, the sith are unlikely to be *really* gone, but they just wiped out a big bunch of infiltrators. And we don't know what the Jedi have been up to during the series (I mean, Nihl/Talon obviously weren't there, maybe they've been taken taken).
Maybe not gone, but hit hard at least. It was the last issue and the character likely wasn't entirely literal, I give some leway for that. Heck, the last pages show that Jao's still out there dealing with trouble.
Originally posted by Q99
An additional thing: Checking the Dark Horse release guides, this is the last new star wars issue from them as well!So, this is quite possibly the last Legends continuity piece to come out, and certainly the last Legends comic.
We still have a Quinlan Vos novel coming out next year.