Wages of a nonresident are subject to Connecticut income tax withholding if the wages are paid for services rendered in Connecticut. Wages of a nonresident are not subject to Connecticut income tax withholding if the wages are paid for services performed entirely outside of Connecticut. Since Connecticut only considers income from work performed in Connecticut to be sourced to Connecticut then work you performed in NY should not be subject to CT income taxes. http://www.ct.gov/drs/cwp/view.asp?a=1479&q=277548
NY is your resident state so all income is taxable to NY.
An interesting tax case with the opposite issue as CT and NY rules differ, you are lucky that yours is the opposite: https://www.cga.ct.gov/2004/rpt/2004-R-0063.htm
I hope this was helpful?
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