I use proseries.  I tried to limit the loss for a partner with a loss & negative basis by entering zero on lines 6,11of part II & III on form 6198.  The loss was still allowed so I overrode the loss on Section C on the K-1 input sheet. 

I suggest that a line be added on the federal carryover sheet to keep track of the disallowed losses for partners or add a worksheet to the K-1 to keep track of the partner's basis.