"so what in the heck would be in a Baptist church that would bother anyone"
Going into a place of Christian worship is seen by many Jews (and apparently muslims) as an endorsement of polytheism.
Here:
http://www.askmoses.com/article.html?h=276&o=181868
In my home town in Iowa, the Jewish Temple was once a Protestant church. But go ahead and deny that such things are possible.