1. Use really really tiny bits so you don't have to worry about it
More seriously: between the collet size and the minimum realistic spindle speed of about 6000RPM on these machines means 12mm end mills are about as big as you're going to go. At that size, bed and beam flex are going to cause more surface finish issues than the spindle being out of whack by half a degree. Furthermore, anything you do to tram in the spindle is going to have to be re-done every time you loosen the clamp and move the spindle which, given the fairly limited Z travel on these, I've found to be at least once or twice for each new job.
I will probably maybe look at getting mine sorted one day - pulling up the bed, bracing it, re-seating it and getting everything squared up. In the meantime it's been good down to about 0.1mm with light cuts so I haven't bothered and I'm the first to admit that if I need better than that kind of accuracy I'm probably looking at spending my time and money towards a proper mill instead of throwing it at what may be better than most cheap routers, but nevertheless remains exactly that - a cheapo chinese router.