Yes, the laws of thermodynamics hold, but what if, oh, say, what you ate had an influence on how much you felt impelled to eat? Or how energetic you felt and how much you moved around? If your fat cells are rapidly absorbing what's in your bloodstream, you'll feel hungry and eat more, and you'll feel tired and move less.
The number one experimental result of dieting is that 95% of the people gain back the weight a few years later.
If Seth Roberts is right, all we're seeing from this study is a temporary bump that results from changing your food habits in any direction, which leaves behind the old flavor-calorie association, which makes you less hungry. And if they stick to this diet a while, they'll develop new flavor-calorie associations and gain back the weight. (This is a very elegant theory which, among other experimental support, explains a lot of the chaos in dietary science; almost any dietary change makes you lose weight, but only temporarily.)
Sorry, metabolisms are just more complicated than this. Call me back when they test Loren Cordain's or Seth Roberts's theories.