The effect remover tool has an undesired effect on 3rd spec sin effects. I've done a lot of testing today. Usually, while having all effects enabled, the Phantom Assassin skill called "Night Reaver" is supposed to produce whiteish outlined backflip clones as an effect animation as you can see
here. They are different from purely black clones that don't do backflips and are produced by Twilight Slash and Twilight Strike (RMB & F).
Now when you use the effect remove to move all the supposed upk's from the CookedPC folder, but manually move the designated 3rd spec sin upk (00069254) back into the CookedPC folder, the whiteish backflip clones still won't show. That means that some upk other than 00069254 is related to 3rd spec sin effects.
Also, for some reason, removing all the effect upk's with the tool and then moving them back into CookedPC by hand
STILL doesn't give you back the backflip clones, which leads me to the only conclusion that the tool is doing more than simply moving files. I've double checked this whole process with another system and the results were the same. No backflip clones, and the tool is somehow eating the clones, even if you move all of the removed upk's back into CookedPC by hand.