I am having this exact same problem as I type this, I can refine dilithium on my Federation Engineer character, but I cannot refine dilithium on my Federation Tactical Character or on my Klingon Defense Force character.
While I have no problems manually refining on my Fed main (nonzero balance) I have noticed the automatic refining fails a lot, or it refines zero, even if I hadn't refined manually that day, with lots of ore sitting around. I'm not the only one in my fleet with this problem too.
My KDF is an Orion "entertainer" that never leaves Drozana... so... no problems there.
The common theme seems to be that people who have this bug tend to have a zero balance in Refined Dilithium.
From what I can tell this problem is caused by reaching your daily refining capacity. The 'you can refine [x amount] dilithium today' counter doesn't reset automatically. Instead, it resets when you refine dilithium for the first time each day. So, if you refine 8000 in one day, you get stuck with disabled 'refine' button and can't reset the counter ever again.
I got response from support ... they are a bunch of ******* ...
Then i took the matters in my own hands.
I got two stations from which i log on. I observed the problem from one of them so desided to check if i log on on the second computer it'll be the same.
I t seems that i can refine dilithium from the second station/computer/client but not from the first one.
So i think this problem has someting to do with the client (locally). That said - a simple client reinstall should remedy the problem.
I've been playing for a week now and ernd a lot of dilithium I tried refining strate away but then realised i have to wait and I'm still waiting its been a week and i have refined 0 dilithium ore simply because the manual refine tab is not working it dose nothing when i click it and most recently it has turned grey so now i cant even press it has anyone had this happen to them i read of similar but not exactly like this