I have one months security deposit and no damage to the unit that will go toward unpaid rent.

Collect any deposit in an installment method if you don't have any in place ... 

I use cozy.co for my applicationsI also suggest you get Brandon Turner's book on managing rental properties- there are sample leases, move in inspection forms, deposit to hold agreements, and a bunch of other useful forms that come along with the bookI put my rentals up on Zillow Rental Manager and Craigslist and usually get a ton of interest.

I have switched property mangers in the mean time but have been pursuing my missed owner payments and security deposit plus 200 dollar emergency fund.

That is no different than drawing on the HELOC you own, and depositing that into the business.

Once a payment is made you will get an e-mail and the money gets deposited just like a credit card deposit.  

I have a separate bank account set up for the house which will hold tenant rent payments and deposit, and will also be used to pay for the remodeling loans and the mortgage.

Our monthly payment was $2400 and included $2400 deposit.  

They rent to people w/  kids-- kids mess things up, it's part of the game, that's why there's a security deposit.    

Do you or the non profit have money for a deposit to tie the land up?