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Scorp is a separate entity for tax purposes. You will file a separate Scorp return (form 1120S), issue yourself a K1 and use it to complete your personal return. In addition you have to pay yourself a reasonable salary, meaning how much would you pay a stranger to do your job. It depends on the nature of your job.
You will issue yourself a W2 and you will also have to file payroll returns 940 and 941. You probably should have been filing 941 quarterly, depending how much you pay yourself.
First you will need to complete and file your payroll return, than you use the payroll return information to complete your Scorp return and W2. After completing your Scorp return you will get a K1 that you will use, along with the W2 to complete your personal return.
If it is your first time filing Scorp, I wold strongly recommend to hire a tax professional to help you, especially with the payroll returns.
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