First off, there is nothing "Mechanicly wrong" with your car. But the car will run very shitty until you fix it. also very shitty MPG. Since you have already taken it places i doubt that it could be as simple as accidenly disconnecting a sensor or line. Although your ports may need cleaned, some seafoam may hold you till easter. but having your ports cleaned is no complex procedure its not an engine rebuild (not even that is terribly hard) and most people who work on cars could preform an EGR port cleaning in 30mins.

As for the tranny, thats prolly the Honda auto transmisson that NO ONE would think about adding extra stress to.

read up on the site many of your answers are already here.