sounds like an airlock to me, i get the same problem regulary with my system because the flow at the hot tap is so powerful that the hot water cylinder empties quicker than the header tank can re-fill it.
to solve it i attach an hosepipe from the cold tap to the hot tap and then open both taps thus blasting cold water up the hot pipework and clearing the blockage.
if you have a mixer tap you can do this by holding a flannel very tightly over the end of the tap and then turn both taps on, careful you dont spray water everywhere though