it will run fine as long as you are still using the same intake setup. If you were using a truck intake then stay with it, if you were using a car intake then stay with it. You can change but if so you need to adjust your Injector flow rate vs vaccum table to make it run. Hope ya get it figured out. Like the above said, you will need to tune it for maximum performance. There are a few parameter that can be changed but it will run ok the way it is.