This paper quantifies the cost of traceability and co-existence systems for GM food from the seed to the processing level for sugar, wheat starch and rapeseed oil for human consumption in Germany and Denmark respecting the 0.9 % threshold for labelling of GM food. The cost calculations for traceability and co-existence measures are done with a specifically developed simulation model. Together, the considered co-existence measures lead to an 8 % higher price for GMO-free rapeseed oil, 2 - 5 % higher prices for GM-free sugar and to a 5 - 12 % price increase for different non-GM wheat products.