A bible encyclopedia usually will have an exhaustive list of something like that along with contextual information (one volume bible dictionaries could be spotty). Also an exhaustive bible concordance (preferably an "analytical" concordance) will work, but will likely be much more tedious. I'm quite certain that there isn't a running list per say in the bible of when stoning was called for. As someone already mentioned the book of Leviticus will be the main source.
in the new testament steven was stoned for preaching the gospel of Christ. its found in both the old and new testaments'. simply go to your bibles appendix or concordance usually found in the back and look up 'stoning' 'stoned' or 'stones' to find the exact scripture references. good luck