[Jiggles]

Only aftermarket fuel injection systems will autotune. If you make any major changes, like new exhaust, or pod filters, then you will likely need a power commander to change the fuel input. Your EFI system has a set air to fuel ratio, it knows what the air input is when stock and so it uses a map to figure out how much fuel to add to that. If you make any mods, you will increase the air flow, but the bike won't know you've done that and will continue putting in the same amount of gas. This will make your bike run lean. Running too lean will damage your engine.

You could probably get away with a slip on exhaust but most other mods would require you to also change the fuel input