Sex chromosome abnormalities are far more common than abnormalities of the other 44 chromosomes (the autosomes) because they rarely produce deadly diseases. There is a very simple reason for this: the numbers of X and Y chromosomes vary between ordinary men and women (women have two Xs, men have one X and one Y), and so the precise number of X and Y chromosomes in the cells of an individual cannot be essential to life.
For example, women have no Y chromosome at all; and so, apart from genes involved in making testicles etc., the Y chromosome consists almost entirely of so-called “junk DNA.”
In contrast, since both men and women have an X chromosome, there is no evolutionary pressure opposing the presence of genes essential to life here, and indeed several are present. For example, the genes for producing the clotting factors that allow wounds to stop bleeding are on the X chromosome (the absence of the correct forms of these genes causes haemophilia).