I have a old bike with Apex 1 11 spd on it. It’s been on the trainer for going on 4 years now with routine cleaning and maintenance. Lately I’ve noticed a klicking sound that goes away with lube but comes back after a few rides. I had the same, but new, cassette, sitting in the garage so I swapped it over but now it’s even louder… any ideas, new cassette old chain a bad combo?
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I might be crazy, but have you checked your bike is on perfectly straight?
Sometimes when I’m on my trainer bike (old aluminum hardtail with QR skewers on a Kickr Core) I look down and it appears my bike is leaning a bit to the right (like the top tube isn’t perpendicular to the Kickr feet). I’ll get a clicking noise even with a freshly waxed chain. I’ll give the whole thing a little yank to the left and it’s quiet for a while 
I need to really check if the whole thing needs leveled but just haven’t gotten that far.
I’d check and inspect the chain carefully too for any broken plates.
A few weeks after a race in really tough conditions I started to notice something similar and I found that one of the inner plates on my chain was completely broken in half. 
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+1 on checking the chain. I had the same problem on my turbo only work horse but ignored it as always wear headphones indoors and it didn’t bother me. Had to use the bike outdoors on one occasion and the chain snapped on that ride!
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I’ve also had a click when I’ve mistakenly used a 10s quick link on an 11s chain. Clue is it’s every 3 or so pedal rotations if it’s one link.
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Noise canceling ear buds should solve the problem. 
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It did for me, until the chain snapped 
Thanks all, new cassette and new chain did wonders. I think a little bit of realization that an old mechanical Apex drivetrain with thousands of hours on hit just isn’t going to be as quiet as my AXS Eagle/XPLR that I take care of religiously.