Does Anyone Besides Olympic & Aegean Fly ATH-JTR?
 

Have booked travel into ATH @ 130pm, the next flight to JTR appears to be on Olympic after 8pm.

It's November travel and OA and A3 each only seem to show 1 flight a day.

But I'm no expert on travel to the area, I imagine there are local carriers that may not show up in the standard GDS searches?

That's it for wintertime. Just one or two flights a day by then on an Olympic turboprop (times different each day) and Aegean (146 jets) go as well. By November all the British/German holiday charter flights that form most of the load into Thira will have stopped for the winter, and many of the locals go by sea. There's not much demand by then. You'll find it quiet.