There is a section in the SQL that will allow you to control how many resources are merged at once (TOP 10). You can choose to change this to any number you'd like.
Also included is an output (PRINT) statement to see what resources were merged.
Finally, this script will only merge those resources where the duplicate count is 2 (COUNT = 2). Anything that has more than one duplicate you'll have to run that mind-numbing manual report.