hey man
there is such thing as a clutch alignment tool, the best tool i have ever made was when i cut the front shaft off the front of my Nissan Blue Bird gearbox which i would put in the clutch and slide into the spiggot bush then tighten the clutch and make sure the shaft can slip in and out easily then your set for putting the box in properly in the car, it has to be nearly 100% to slide in first go.