>  The obvious solution seemed to be to download the main 
URL
> and set an exclusion on section002 on day1, ...


Just remove the exclusion for day2 and choose "Continue 
interupted download". Already present files from section001 
wont be redownloaded. Section002 will be added and you 
should have a complete mirror with section001 and 
section002 including local links, etc.

Just a suggestion

Juergen