I think the heater core is in the front of the vehicle, not behind the seats.
I know you already checked your drains, but you might try pouring some water and double checking it exits the vehicle where it should...
Also, 303 makes a fabric protectant designed for canvas convertible tops. I read somewhere it's easier to apply.
Some advice, I used the 303 product recently, and used a mix of painters plastic and paper to mask off the windows. It soaked through the paper pretty quickly, so stick with plastic.
-james
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'01 Boxster S, 51k miles
'05 Mazda 6 Grand Touring Wagon
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