I second Bill's suggestion regarding pipes. It will cost you very little to modify your stock silencers and the results may be all that you are looking for.
I would definitely remove the AI ASAP. My dealer did this as part of the deal prior to me picking up the bike. The Bonnies run darn lean from the factory. Virtually anything that you do to improve breathing and/or lessen exhaust restrictions, will require rejetting or you will run even more on the lean side.
This site,
Triumph Carbs, has pretty good instructions for rejetting the carbs on America's and Speedmasters. Bonnevilles are very similar. A suggestion, if you do the rejetting yourself, replace the stock carburetor screws with decent screws. The kits are available from NewBonneville and, I think, BellaCorse.com.
According to the dyno, I gained over 5.5 peak HP by rejetting to 120s after removing my rear baffles, drilling the remaining baffles, and removing the snorkel. The gas sniffer shows the mixture is OK. The torque curve has definitely improved.