Problems with Ryu's FADC?

I just fought a mad Ken who did jumping kicks into EX Shoryuken. I try to absorb the jump kick, but then the Shoryuken comes out right before I release it. Is there a point to using FADC if it’s not coming out quickly enough?

That’s not what an FADC is. You are just trying to anti air with a simple focus attack. Going into shoryuken after a jump attack is a good but risky counter to that. Instead of using focus attack, use something else to anti air or just block and punish the shoryuken.