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Ok, now this is beginning to make some sense. I entered it under the Income and Expenses section but then there's also a section under Deductions & Credit, "Traditional & Roth IRA Contribution" where I entered the 6000. Before I entered it I looked up whether a SEP was a traditional IRA and what I read said it was... seeing now that that was incorrect.  

So to be clear, in the section "Traditional & Roth IRA Contribution" under the Deductions & Credits section, I leave that blank. 

The next page where SEP is mentioned is the Retirement Deductions Results which includes the 6000 but then adds an additional dollar value "Amount to be Contributed by Plan Due Date".. there is a total retirements contributions of the 6000 and then Amount deductible. Does this sound correct?