Bedrug made some minor changes to their 2013 Tacoma Bedrug part number for the first time since '05. For those of you that don't know, each Bedrug is custom made for each truck bed and designed to allow you to use all of the features that came with the truck. The Bedrug ships with pre-cut holes for an easy installation. However, we installed a Bedrug on another Tacoma and the pre-cut holes were a little big...not much, it still was a nice fit...but not perfect.
Bedrug is phasing out the old Tacoma part numbers and all 2nd gen Tacomas will receive the '13 part number by the end of the year. I'm sure they're just getting rid of their stock and will supersede the part number.
I have an '06 Tacoma, but I ordered the 2013 part number so that I could have the best fit possible. The only big difference was that we cut holes for the two cubby holes closest to the cab. It ended up with a perfect fit.
Here are some pics on the Bedrug Installation blog post. Our installation video will be done soon.