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Does the same issue occur when running the workflow on Designer on the Server?
Does it run fine from a client Designer?
This issue hasn't repeated in the last few weeks, so I'll considered the issue closed for now.
In doing a bit of research, it seems that this error is a generic network error. I was thinking that Alteryx had an error lookup table. For example, for error 121 (Semaphore timeout), then check x, y, or z type connections.