I have ridden this bike a fair amount this summer after lots of wrenching and lots of help from this forum. It is in "survivor" condition with 26k on the odometer. After it warms up, it bogs momentarily around 2k. Since the engine likes to be revved, this is only irritating when riding around town on slow hilly corners, or making a turn after slowing down. Here's what has been addressed already:
New battery, voltage reg, rectifier, coils, points. New cables. Carbs rebuilt with new rubber, emulsion tubes, main jets, float valve, gaskets. Kept original pilot jets, jet needle, and air screws, all stock jet sizes. Bike has stock mufflers and airbox. All intake boots sealed/not leaking. Valves have been adjusted and carbs synced. Timing and point gaps all good. The jet needles are set in the middle position. I have tried various positions of air scew settings, which affect the idle but don't seem to change the bog symtom much. Before I replaced the voltage regulator, it wouldn't charge the battery completely back up. Now it is usually between 12.6 and 12.8 volts after a 3 hr ride. I don't really expect anyone to know what is going on with my cb550, but outside input will spawn something that I hadn't though of, I'm sure!