Just a thought Mas, measure the tailpipe and make sure that it is protruding the right distance from the back of the car. The airflow around the back of a car is very complex, and if you put the exhaust fumes into the turbulence in the wrong place then it is possible that they will be swept where they shouldn't be, and hence enter the cabin. It's just an idea, but worth investigating.
BTW, the rubber boot around the gearstick can be removed entirely without any ill effects - this won't be the cause of you getting exhaust fumes in the cabin. (If you remove both the gear lever gaiters then the sound in the cabin is gorgeous!)
Oli.