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Huh? The individual metabolism (aka the "metabolic privilege") is what primarily determines the "calories out" part. No one denies that people have different metabolisms.
The CICO theory says that the only way to lose weight is to have a negative calorie balance. You can achieve it in any way you want -- by lowering the CI part, or by increasing the CO part -- but it has to be there for you to lose weight.
The claims that all calories are fungible or that the CO part is stable are just strawmen.
Statements including "no one denies that ..." are usually false.
Regardless, my goal here was to ask people to help me decipher what "calories in" and "calories out" precisely mean, especially where the correct version could differ from the naive interpretation.
Because it seems to me that (a) the naive interpretation is wrong, but (b) most people use the "calories in, calories out" argument as if the naive interpretation is true. ("If you disagree with the naive interpretation, you ignore the laws of physics!") Motte and bailey, etc.