The Balance Sheet has been entered in on a GAAP basis assuming that is what the client would provide. In the depreciation worksheets, I put into both the book and regular basis assuming the software would calculate the difference and put it in a worksheet and the M-1.  

I do not have any overrides put in the system that I am aware of, so it should work. 🤷‍

I've gone through and verified that no Overrides have been entered.  My M-1 line 1 is off, 4a is not pulling in from form 4562, nor is 7a.  The difference between 7a and 4a is the amount that I am off in line 1.