I got a new crt .5 center differential in the other day. The holes are a little off but not a whole bunch. I think the problem I had was the size of screws that I had used were 3mm. The center differential takes the 2.5 screws. My diffs holes were stripped out so one wasn't even grabbing and the other was on the brink of being totally stripped also. Here's a couple shots of the new center cup with the plastic spur. This one might look a little different. Doing some more experimenting on using a stronger rear center dog bone. This diff has a Losi 8B cup installed for the centers rear cup. Only one I had to experiement with. I also increased the bearing hole in my RCM LS10 mount to fit at 12mm bearing. The red showing in the lower left hand hole on the diff is just a piece of the paper gasket.
The right size screws should help a lot and the new cup.