I get little spots that do not transfer when using the WonderSauce why?

When a bottle of WonderSauce is left open it can dry out on the inside of the bottle where there was liquid.  When this dried material mixes in with the liquid that can cause grit in the sauce which makes spots where the film cannot make good contact.  That is why it is important to keep the bottles closed.  If it does get this grit in the solution just strain the Sauce into a brand new bottle.