Personal preference: I'd switch to Swiss if I were you. The in-air product from TK is quite good. But the ground staff at IST are outsourced and are notoriously awful in the case of a misconnect or other IRROPS.

Plus, you have to assume that TK will have further cancellations and schedule reductions if things continue the way they have been and people keep cancelling their plans to visit Turkey. That could impact your flight schedule.

That's not to say that flying TK is unsafe. I don't think it is. But it may be more of a hassle than flying Swiss. Your call.