as long as you are booked in an eligible fare class on KL (the paid fare buckets that are not allowed are on the website - G, N, and V earn NO miles), you will get the 100% MVP Gold Bonus and the miles count towards the 75000 needed for the bonus.

anything that counts towards elite miles counts towards the bonus. there is a webpage that hasn't been updated to show that - but the AF/KL partnership is still developing (albeit slowly) and the pages havent all been updated.

i flew KL in february and received all the bonuses. Note, however, that certain fare buckets will NOT earn miles (or any bonuses) on both AF and KL. those are spelled out on the partner page on the website. perhaps the OP is flying in one of those fare buckets.