He's paying you by check, gross amount with no withholding. You should expect a 1099 by early February where you are liable for income taxes plus self employment rate FICA (15.3%). I see this frequently, mostly in the construction industry. There are IRS tests for considering someone a contractor (1099) vs. an employee (W-2).
If you do not receive a 1099, you can clear yourself by filing that gross pay on your tax returns, but you might stir things up with your employer's relationship to the IRS.
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