Based on everything i am hearing and what I have experienced, I am 99% ready to blame the intake. I hope that's the case.
I haven't had the chance to go back to stock due to me being a noob when it comes to tinkering around under the hood. I lost the screws that attach the air scoop to the front grill. I'll be at the dealer for my courtesy check this Thursday, which I scheduled before any of this happened. That means this should be resolved by Thursday at the latest.
I'll update once I get any info.
You don't need screws to attach the stock scoop, buy the Carbonio!
I own a Carbonio and my MAF sees 202 g/s in 82F ambient with humid Florida conditions. I'm on a BW K03 and anything over 200 g/s is considered excellent for MAF readings and couple that with the ambient conditions and 202 g/s is great flow. I have a Carbonio intake, VWR panel filter and I removed 2 of the directional fins in the engine cover (this showed a verified gain).
If the intake is causing the issues you will need to replace it, if that's the case I highly recommend a system that is proven to have excellent build quality or has a stock MAF section. The Carbonio fits awesome and looks great, the foam panel filter has decent surface area, the MAF is OEM so no worries there, it's insulated from heat while drawing from the coolest location and carbon fiber also dissipates heat very well. VWR intake is probably the best option as it has been verified to work with APR's tune which is calibrated with the stock MAF dimensions, has an enclosed foam filter and has tubing that goes all the way back to the compressor inlet.
Remember, cold air = dense air = more air. The MAF reads it in g/s via sending a voltage to the EMS and collects the temperature to use a density conversion factor.
Replace that POS CTS piece and enjoy your car again.