Flashing it back to the stock map is a good step for your 2-1 exhaust, the Acro map was way too rich and had the O2 sensors turned off.
I'd also say to remove the pre-filter and put the stock intake horn back on, fuel injection is very sensitive to changes in the intake.
Your gearing is also too low for high-speed mileage. The best mileage on these is in the 3800-4200 rpm range, using less than 10% throttle. TuneECU will read out your throttle setting and you can mark it on the twist grip to help you analyze this.
"Dad, can I get a motorcycle when I grow up?"
"Son, you can't do both"