I just completed my Draft return using the self employment edition for 2 LLCs. I owe federal taxes. Would this include self employment taxes, or is that separate ?

The tax due includes any Self Employment tax.  SE tax is on 1040 line 57.

Self Employment tax (Scheduled SE) is automatically generated if a person has $400 or more of net profit from self-employment.  You pay 15.3% SE tax on 92.35% of your Net Profit greater than $400.  The 15.3% self employed SE Tax is to pay both the employer part and employee part of Social Security and Medicare.  So you get social security credit for it when you retire.  You do get to take off the 50% ER portion of the SE tax as an adjustment on line 27 of the 1040.  The SE tax is already included in your tax due or reduced your refund.  It is on the 1040 line 57.  The SE tax is in addition to your regular income tax on the net profit.

But tell me about the LLCs.  Are they Single Member LLC?  If you elected to be an S corp you need to file a separate Business returns for them.