I'd get an OBD/CAN reader and see what the O2 sensors are doing. If anything doesn't look quite right, put the stock parts back on and see if that makes things any better. If it's still throwing errors with stock parts, take it to a dealer (you've already got the stock parts back on, so that's no longer an issue).
Edit: And check to make sure you didn't knock any wires or hoses loose when you made the mods.
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