Churches generally don't pay social security for clergy. Clergy are self-employed for social security tax purposes. In turbotax, check the box for "religious wages" under special circumstances and you will be prompted for information about your housing allowance or the fair value of your parsonage, and you will pay self-employment tax (15.3%) on both wages and the value of your housing. (Housing is excluded from income tax, though.)
If the church did pay employment taxes on form 941 or form 944, they must be added to the W-2, and in that case you can't easily use turbotax unless you are prepared to use the program installed on your own computer and make some overrides. You might be better off with a tax professional who understands clergy wages.
It sounds like you really need to read this http://www.ecfa.org/PDF/2016-Preparing-Tax-Returns-For-Clergy.pdf
