ahhhhhhhhhhhh YES, that clears it up. The 'Extra exemption' is referring to the gradual process of rolling it in, rather than a monetary amount. So yes i got confused when i read that, and i mus-interpreted it.
OK thanks for clearing that up. So this definitely isnt a bug and can be closed now, thanks Perpete!
PS: Just made a suggestion in the suggestino forum that the amount of salary an individual player is exempted for be listed somewhere. This would take the 'guess work' out of knowing what you drafted/purcahsed a player for and then guessing how much of his salary is from what you trained etc.