Just a tip -- make sure if you use BeyondCompare that you do a rules-based comparison. When I did mine it was by default using a binary comparison and it was showing that every single file was different due to them being a slightly different size even when they had no actual textual changes. Once you pull up the folders for comparison in BeyondCompare, select all the files you want to compare and right click----->Compare Contents----->click the "rules-based comparison" radio button and hit OK. That should actually check the files for differences rather than just comparing the file sizes of each.