What I would do is this:
Speak to the doctor and ask....
1) If its in infection or inflammation of the urethra, has the swob or urine test showed any abnormalities? I.e. bacteria, white blood cells, puss cells, blood etc? My guess is that they wont have those results.
2) Do they think you have a blockage or narrowing of the urethra. If so, could an ultrasound or flow meter test be used to confirm this.
3) If they think its an infection, would the antibiotics clear it - although, generally, they shouldnt give them to you unless they know there IS an infection , though generally, urologists will do this anyway whether they know or not... its text book
The in terms of course of action....
1) ask is it a rigid or flexible cytoscope they will use (rigid is more painful)
2) what are they hoping to achieve using it and is there any other method they can use beforehand to confirm any suspicions
3) if they believe its an infection, can they run tests on your urine to confirm any abnormalities and would antbiotics clear it without need of cytoscope.
See what they say.... if they do it, and not going all the way to the bladder, then it shouldnt be as bad.