If, instead, as on OpenBSD, the kernel enforced the rule that all system calls had to go through libc (or perhaps a big ntdll.dll-like VDSO), then the whole problem the linked article tries in vain to solve would disappear. If you wanted to hook a system call, you'd just change the libc/VDSO dispatch. No need to rewrite any instructions.

If I were Linus, I'd make a new rule: starting today, all new system calls must go through VDSO. No exceptions. SYSCALL from anywhere else? SIGKILL.

This way, you can just LD_PRELOAD in front of the VDSO and system call interception in userspace Just Works.