Interesting Tranny Issue - Throwout Bearing? Options

[Coomer]

Lately my tranny has been making noise. When the car is in neutral with the clutch pedal out, the car will often make a sort of soft repetitive clacking noise. If I let off the clutch pedal very softly however, the noise is much quieter. And the noise disappears when I push in the clutch or when I am in gear.

Does this sound like a problem involving the throwout bearing? I had this problem before, so we replaced the throwout bearing when I put in a new clutch, and now I've got the same problem again.

[94GT]

Whenever I think of clacking noises, I think of noisy valves or a loose timing belt. Have you tried listening to it in the engine bay while someone else works the pedals?

[Coomer]

Whenever I think of clacking noises, I think of noisy valves or a loose timing belt.  Have you tried listening to it in the engine bay while someone else works the pedals?
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It's definitely not the timing belt or valves. My VVT pulley makes a little bit of noise though. But the noise I'm talking about is definitely coming from the tranny area.