The short version is that the more torque your engine makes the taller you can gear.
The more slippery the bike is, the higher you can gear, but at normal riding speeds this is basically a non issue. The OEM mirrors offer as much wind resistance if not more than almost anything else on a naked bike.
If top speed is your objective gear it so it pull the maximum revs in 6th, in some cases that may require lowering the gearing in others raising it. It all depends on the bikes weight, aerodynamics and power.
As I've said before read Kevin Cameron's Sport bike Performance Handbook, especially the chapter on final drives and all be revealed.
Unfortunately your short version does not answer any of my questions.
I understand what gearing does, that is not what I asked.
I have not read Mr. Camerons book but I doubt it mentions the RE650 in particular and how changing the exhaust affects it's ability to pull higher gearing.
I am sure the book will have the means to show you how to calculate the end result if you have all the information, we don't have it, until we do, the book won't help much.
With so many variables, the more facts we get the more people can get an idea what to expect with different modifications. It doesn't matter whether a modification feels better or worse, that is subjective and only relative to their particular needs/objectives.
For pure street riding I'll start off with a bit of info I have so far found.
With stock gearing in 5th gear my bike could hit the rev limiter showing 105mph. With the 16tooth sprocket it will only pull 7200 revs however the the speed has risen to 110mph. This was done with me crouched down as much as possible.
I am only 5'6" 160lbs riding a GT on OE tyres with the TEC Stinger exhaust system, free flowing air filter and booster plug.