We were doing a cheddar. Not a complex cheese, but no matter how good the milk tasted, no matter how well we controlled things - well, accidents happen.
Wonderfully flavored sharp cheddar with great overtones of goat pee, especially when warmed. Ick.
I've been making cheddar this year too, with maybe better luck than you but I had the same bad mojo with cottage cheese. What recipe are you using? I've had good results with Ricki Carroll's "Home Cheese Making", pg. 186. I had to do mozzarella about 20 times before I got it right, and then my process ended up different from any recipe I'd read. It was just trial and error - with a lot of *good food* for the chickens