Basically appreciation potential, and potential cash flow follows all that.  

I would make a list of all the work, and for the appraiser include the costs, so they can justify the new valuation. 

Next, todays cost of replacement.

If I were you I would go to a local attorney and see if they will collect for you on a contingency basis and you pay the costs of the suit (probably $250).

I will be doing a pretty large renovation in one of the units, and mostly cosmetic reno in another unit, so i'm wondering what the best way to go about dealing with any potential lead issues in this case.

The property is zoned as a 2-unit but have 3 independent units to potentially generate rent.

What is the cost of Nate's program?

If you're aiming for long-term growth and are interested in potentially fixing and flipping properties, a fixer-upper could be a great option.

I'd avoid at all costs in NYC.

Generally in the first year or more you’ll have enough of those to not really incur any UBIT on especially when you factor in cost seg.