3.6 pentastar and small block/Hemi use different bellhousing bolt patterns, same way that the slant 6 and small block/Hemi use different bolt patterns.
As for the 3.5 to 3.6 talk. Dodge used a 3.5 v6 from 2006-2010 and then a completely different designed 3.6 engine from 2011 until current.