RoadVenture is right. Pretty much all but custom exhaust options for the Rocket are 3 into 1 into whatever so fuel mapping per cylinder need not be considered.
However, about the fuel injection system compensating for changes - Rook is right but only up to a point. Factory tunes are usually rich to be safe so small changes like switching to catbypass from empty catbox won't hurt without retuning, but bigger changes like using a catbypass from full catbox or going to TORs and catbypass from stock will open exhaust flow a lot more and mapping will need to be retuned to avoid damage to the engine.
Even if the bike feels like it is running ok doesn't mean it is running right. Lean running will produce a hotter running engine which you may or may not notice and the damage done to the valves, head and plugs may not be noticeable until doing quite a few miles.