Started to lay my 3 course of block. Noticed the footer had crackes in it. It was poured last Wed. Is this common, or will it cause a problem? seem to be top layer cracks.
Two layers? You mean top and bottom? If you have longitudinal and lateral rebar top and bottom and a stable sub-base, then it is likely just shrinkage cracks and nothing to worry about. The steel will hold things together.