Hello~That would be very annoying. The only thing I can think of is maybe you have your head and neck in a certain postilion and this is causing the issue. It may be causing some pressure in your TMJ, which could possibly cause this feeling and when you stop, the pressure on the TMJ is also released. TMJ is "Temporal Mandibular Joint", and it can cause all kinds of weird issues at times.
Perhaps take more breaks if you have to do a lot of typing, maybe this will help.