PRC seems to model Schedule E income/loss only on rental properties. But self-employment income generally comes from Schedule E businesses and the income stream tables as if income is from self employment. The Tabular Projections|Taxes tables provide for Schedule income/loss, but my assumption is that the data source for those columns is rental property. For those of us self employed folks without rental businesses is there some other place where these deductions would be entered in order to get a more accurate AGI?
No, there is no other place. PRC models the details on rental properties but doesn't have that ability for any other type of business. All you can do is enter NET income on the Income page.