Rich, when you look into the schematics you will see that indeed the UART signal are broken when the programmer is snapped off. You will need to manually make a connection between the pins.
Schematic (located under C:\Program Files s(x86)\Cypress\CY8CKIT...)shows at initial picture what gets broken, Serial connections show:
P7_0 UART Tx (J9/7)
P7_1 UART Rx (J9/6)
Take a magnifying glass in case I was wrong, silk screen clearly marks the pins
And Yes, warranty will be lost when kitprog is snapped off, but Cypress is very accomodating. ;-)