It will have alot to do with which code revision you are under and local code. I'm out of the office and way from me code books as long as you wire the switch as a 200 and switch all the way through you generator panel then I don't see a need for additional OCPD's. It's protected.
A little side note with my inspector cap on, its my humble opinion even though it sounds like you are just doing an add on, it has to meet current code. I do belive in the 2008 cycle requires an automatic switch, not manual