For 77, Honda was attempting to appease the EPA by doing what they demanded for other US models lowering hydrocarbon emissions. And, that meant going to a lean burn engine. Honda went this path with PD carbs, a slightly more restrictive air filter box inlet, and a 4 into 4 higher pressure exhaust system. Then they jetted the carbs to get the proper mix ratios for running on the street and get close to 1978 emissions requirements with a finely tuned idle circuit adjustment. Therefore, when changing the intake and not carb jetting, the engine runs far leaner. Further, less back pressure increases scavenging and removes unburnt hydrocarbons from the last firing cycle. So, they aren't there anymore to effectively enrich the firing mixture and reduce hydrocarbon content in the released gasses. EPA smiles, anyone wanting motorcycle performance frowns.
The 550 never had and accelerator pump. On other models with this feature (such as the 77-78 750), when the throttle is twisted and the slides raised, a shot of gas is forced into the carb throat. As carbs with mechanical slides can suddenly open with the throttle, the vacuum in the intake runner and carb throat suddenly drops (or raises to equalize closer to outside atmospheric. It is the difference in carb throat pressure relative to outside atmospheric pressure that drives fuel through fuel jets. (Ever wonder why the carbs don't still feed gas when the engine isn't running? That is why, as there is no differential pressure between the carb throat and the outside pressure.) So when you whack the throttle on a 550 it will just wheeze and die unless... The idle mixture, and just the idle mixture, is set over rich in order to keep the mixture in combustion range when it gets a sudden inrush of air with no no corresponding extra gasoline (actually less).
So, after you put on proper intake bits to restore the carb throat vacuum as it should have, and an exhaust you plan to live with a long time, and if they are not the stock components, you will have to re-jet the carbs (Main, Needle, and possibly idle jet) in order get the mix ratios proper for your engine. Until then, expect awful throttle response and an engine that runs way too hot and cooks the oil beyond functional effective use. As it is, your current complaint relates to an engine operating way leaner than Honda ever anticipated.
Cheers,