As with any fuel injected bike when installing an air intake and fuel processor, pipes etc, the processor should be mapped, this is generally done by doing a baseline run on a dyno, fitting the accessories and then doing another dyno run, the mechanic then tunes and adjusts the fuel processor ( it should have both + and - adjustment capability) to suit both the HP and torque curves, this is a skill and not all can do it.
Many a layman will tell you go position 1 for this, position 2 for that , so on and so on ... problem .... not everybody has the same conditions, height above sea level etc, i am sure if you live in EL Centro California (sea level ) you will require different settings than if you live in Denver Colorado at 6000ft above, You should get a reasonable increase in HP and Torque for your money, the bike should start just fine, either they dont have the skill or equiptment to tune properly and by the sound of it are "just bolt on "specialists.
To give you an idea, i have seen a V Star 650 pull 10 + HP using a hypercharger and Cobra pipes, while this is carberated it gives you an idea of what professional tuning can do. The first Dealer that the bike was taken to couldnt tune at all and the bike was running so rich you couldnt even ride behind it, the bike stalled all the time and was hard to start, the second Dealer pulled everything off, started from scratch, baselined it, added accessories, dyno'd it again, tuned it , dyno again to check the tuning through the RPM'S , HP and Torque gain, and all was well .... $475 + tax later for a job that should have been done right in the first place.
Good luck, find someone with the skills to do the job properly and enjoy you investment.
As i flipped into 5th, i couldnt remember a damn thing she said
2009 Classic LT Bagger... Batwing Fairing, Metzler 200 rear, Mutazu Hard Bags, Denray Hitch, Mustang Seat, Piggybacker Trailer.
[I] ... traded on a 2015 Ninja 650 Abs