In reply to bushwacka:
The tent is not necessarily irrevocably damaged. So long as the mildew is not too severe with signs of delamination between the the PU coating and the nylon fabric of the fly.
The key is to kill the existing mildew off so it doesn't spread. If left untreated, mildew spores will remain dormant on the flysheet and will become active once the tent is used again and condensation appears on the fly.
Don't use household mould inhibitors or bleach or try to machine wash the fly. Scrubbing the fabric with a mixture of equal parts lemon juice and salt seems to work for some people. I would recommend sponge wiping with dilute McNett Mirazyme. This was originally developed for deodourising wetsuits but does an excellent job of destroying mildew spores on tents too.
http://www.mcnett.com/MiraZyme-Enzyme-Based-Odor-Eliminator-P240.aspx
This won't rid the fly of mildew stains though - but this is only cosmetic.
Otherwise the tent should be perfectly fine after this treatment.
Remember to fully air dry your tent in future before storing it. Even the slightest damp from condensation left on the tent may be enough to invite another infestation. Hope this helps.