Jay, if you have the option to switch from Woocommerce, I’d recommend Jigoshop. I haven’t had any fishy behaviour with it and it has served me well so far. It’s very actively developed and, if my memory serves me correctly, is what WooThemes team used to make Woocommerce, so it’s quite similar to it.
Of course if you can’t switch, then again if my memory serves me correctly, I deleted all of my products and associated data with said products and then imported demo Woocommerce data instead from the file they provide, and then just worked from there somehow and got things working.