[maupineda]

I have the exact same intake setup, and no issues whatsoever. I did drive it a bit with the stock tune and air filter, after that I had it mapped. But again, it never sputtered or hesitated. I would start by a tuneup based on your mileage.

Clean ICV
clean ITBs
Make sure PCV is not clogged
Change spark plugs

And lastly, clean the MAF if there is grime accumulated on it using MAF cleaner