Do search of threads on this issue, the failure of the auxilliary pump can fry electronic components and the circuit board's traces on the CC unit. Maybe this has already happened from the earlier motor failure? Commom concensious is insallation of an inline fuse for the pump is cheap insurance to protect the costly CC unit.

You can check these guys out for some info also:

http://www.fix.net/~gdl/begin1.html