My best guess is you need to go to Depreciation > Details > Prior Section 179 expense and be sure to enter a figure for State if Different in the right hand column.

GENERAL HINT - If you want to indicate zero, then use minus 1. ie.0 = -1. A blank is just a blank and a zero is exactly the same thing in terms of entry. 

Thank you for your comment! I could solve the problem.

How'd you solve this? Having same issue. Seems that if there is current year 179 depreciation AND prior year carryover Lacerte is somehow messing up the allowable NYC depreciation. I recreated a return without current year 179 depreciation and the software didn't mess it up. Only after entering current year 179 did it mess it up.

?? I don't do much NY/NYC so this is just a guess

Scroll way down in the depreciation entry to find "NOTE: NY entries below are for New York City Depreciation (Form NYC-399Z)."