I have seen and taken note of the current known issue re: depositing synthcord.
I cannot deposit mine, at all.
I have tried going to/from orbit.
I have tried exiting to desktop and relogging.
The loom knows I have synthcord and will allow me to press 'e' to deposit it, however the synthcord does not disappear from my inventory, nor is a synthweave bolt created. I can press 'e' repeatedly, if I like, but nothing happens.
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I have a similar issue, only it DID deposit my cords... Just to give me nothing! And it's still flashing and doing the animation for me to turn it in, but I'm not getting anything!