Yes, you do need a second EIN (Employer Identification Number) for your New York company. This because the New York company has a different legal name and is actually a different type of entity.
A Limited Liability Company is distinct from a Professional Limited Liability Company.
You need to do separate accounting and separate tax returns for both businesses. S-Corporations file Form 1120-S to report income and expenses.
Filing Form 2553 is the correct way to request permission to be an S-Corporation.
You need to pay a fair amount of wages to yourself, an employee, or both for a profitable S-Corporation. Depending on your situation, you may need to file W-2 Forms for both companies for yourself. If you are providing services in New York, you need to receive wages in New York.
You should be aware that your New York income will taxed in New York even though you live in New Jersey.
Click here for more information on filing in NY and NJ.
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