No, the bearings are inside the carrier and have nothing to do with your CV axle shaft not fully seating inside the splines. If the bearings were incorrect, I have a hard time believing that the carrier would bolt back properly or that the clamshell housing would fit back together.
The cir-clip on the end of the cv shaft can be a bugger to power into the diff carrier, but it will eventually go. Some say if you position the cir-clip with the open gap upwards it works better as you shove the shaft in. I think it doesn't really matter.