Jay appeared at least 2 time after helping Barry defeat Savitar in season 3...
"Enter Flashtime" - where Barry and Jesse Quick try to disarm a bomb(?) while also discovering Flashtime. Ends with Jay saying he's going to retire and train a new speedster, who we never see.
"A Flash of the Lightning" - After he learns about Crisis and antimatter, Barry visits Jay who helps him discover the billions of futures.
This Wiki also says Jay appears in 5x08 aka the 100th episode, but I don't remember seeing him unless it was a brief flashback or Speed Force vision.
We haven't seen him after Crisis, but I hope he's still alive, around, AND still played by John Wesley Shipp!