I found a post about this from last year with no replies, and I’m having the same problem and wonder if anybody knows what causes it or how to fix it.
Was working on a song, and Cubase crashed.
When i re-opened the song i noticed that when i hover the pointer for example on bar 2.1.1 the actual transport is about an inch to the right of where the pointer is, and it starts playing around bar 3.1.1.
Opened a backup, and a similar problem, though it’s only about a half inch off.
Opened a different song, and the pointer/transport are in perfect sync.