It happened at the East 68th Street and Third Avenue location on the Upper East Side around noon.
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Authorities say the 18-year-old shoplifter was attempting to steal something when he got into the altercation with the 52-year-old worker, who then took out a box cutter and slashed the suspect.
The suspect ran around the corner to the Park East Synagogue and school on 68th Street, where he collapsed on the steps.
He was taken to the hospital with non-life threatening injuries.
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He is expected to be charged with the shoplifting.
The CVS employee was also taken into custody at the scene. Charges are said to be pending against him as well.
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