I have the following SVG:
As referenced in my answer to Applying rounded corners to paths/polygons, I have written a routine in javascript for generically rounding corners of SVG paths, with examples, here: http://plnkr.co/edit/kGnGGyoOCKil02k04snu.
It will work independently from any stroke effects you may have. To use, include the rounding.js file from the Plnkr and call the function like so:
roundPathCorners(pathString, radius, useFractionalRadius)
The result will be the rounded path.
The results look like this: