Bah. It's like they didn't know that schema-free data stores mean "there is no schema; different objects may have different fields". This is the whole point of MongoDB: you assume the responsibility of managing the schema. That's a "feature": you get greater flexibility by assuming more responsibility. Whether it's a useful feature, I won't say.
Their second reason is much more valid: MongoDB is not consistent/durable, all that. It's good for a cache, but not for long term data.
Here's a third reason I'd give against it as your primary data store: it's expensive. You have to keep your entire dataset in RAM, but that's not always necessary. My favorite example is from Foursquare. They had every single check-in ever in MongoDB in RAM. That's absolutely unnecessary, and quite silly to do so. Old check-ins are archived data. You don't need them. No user ever wants to know when/where they checked in three years ago. This is why at the time they were paying for 68 GB RAM Amazon boxes instead of 4-8 GB boxes. (I have no idea what they do now. I remember chatting with them on HN after a catastrophic out of memory failure when they filled up the entire 68 GB's).