You can't claim all that stuff until the year the unit is placed in service. For now, you won't even report it on SCH E at all. All you can claim on your 2016 tax return is property taxes and mortgage interest, and that's it. Even though it's a commercial property, you'll deal with those two items in the "Your Home" section under the deductions and credits tab.
You'll enter the 1098 for your primary residence, then you'll enter the 1098 for your "other" property. That will take care of that.
For the rental, if you have mortgage interest and/or property taxes paid that are reported on the closing documents and NOT reported on the 1098, you'll report the property taxes paid that are on the closing document and NOT on the 1098, in the "Other Property" field. on a screen you'll come to AFTER you have entered all your 1098 information.
Note there is a note that says "do not enter rental property stuff here". You can ignore it, because in 2015 this was NOT rental property in any way, form or fashion.
You'll deal with the other stuff on your 2017 tax return next year. Those other expenses incurred (such as maintenance fees for example) will be amortized and depreciated/deducted over time. (15 years I think, but not sure). The amortized costs do add to the cost basis, and you will have to enter them manually in the Assets/Depreciation section, when that time comes next year.
