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While playing around in settings, I believe I did something to cause all output to be printed to a pop up window. How do I restore the output to the notebook where the evaluation occurs? In options inspector all of my settings seem to indicate that messages should print to console but I am unsure.

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What does:

CurrentValue[{MessageOptions, "KernelMessageAction"}]

"PrintToNotebook"

return for you? If it is not "PrintToNotebook", try resetting it with:

CurrentValue[$FrontEnd, {MessageOptions, "KernelMessageAction"}] = Inherited

"PrintToNotebook"

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