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Export is implemented through what is called in JACK parlance, freewheeling mode. There were some known issues with particular JACK/kernel versions or builds regarding this behavior to real-time process scheduling.

Nevertheless, yet again, I'll ask whether this behavior is actually reproducible on every occasion. Try to find one particular pattern or circumstance where its more probable (yes, the same old suggestion you recently heard before ;) Try changing the export range, or even smaller buffer size, for instance, and see if the problem may be related to some boundary condition, whatever :)

Seeya