To counteract this, I began to target foreclosed properties that had no tenants and needed alot of rehab in less than desirable area.  

Urban Decay Pictures What a difference in some areas!  

You should get all that back to counteract your total deductions.

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However, it's counteracted by your gross rents and some expenses as you stated which is different in two scenarios:You bought the property less than a year ago and the expenses are not yet on your taxes - Then 75% of your gross rents (or market rents if not rented) are used.

RE is subject to police powers, when those powers are not enforced you'll have decaying areas, a homeowner's group can bring pressure to bear on officials, make them get off their tail ends.These are the social responsibilities of property owners and something that is not understood by investors, with ownership comes social responsibility and there can be consequences if you fail in that responsibility.Curing a neighborhood isn't going to be fully accomplished by changing you tenants or cracking a whip over them, the neighborhood attracts only those willing to live there.

Obviously, when mold is present and spreading your structure is experiencing decay at times more aggressively than others. 

With the accompanying decay and mold.We had laminate in ours before the Great Flood of 2013. 

If you install it on the roof, there IS a great possibility it WILL cause issues with the warping or decaying of the roof.

Sorry...this subject always strikes a nerve with me as a person born and raised in Seattle and witness to the decades of decay in its politics.