If the EIN is tied to the LLC that you are reporting on the Schedule C, then you should include it with your return.
If the Schedule C is for another business, other than the LLC, then it is acceptable to use only your Social Security number.
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Why did you get an EIN? You really only need one if you pay employees. Or if you don't want to give out your ssn. Why is your ssn on the 1099Misc and not the EIN? Did you set up your LLC as an S corp?