So are you saying if the file state return box was checked, the tax program goes ahead and files the whole return even though you only requested to file the extension when you e-file?  Is this something unique with NYS? It does not work that way for my other returns or federal extensions.

That may be the issue, but customer support certainly did not think so when I did a screen share with them and followed their instructions which caused the return to be filed. Thanks for your reply.