Had a computer worm, think iPod was affected... Many questions...

Hi Folks,
Crazy week here - long story and long posting, but bottom line installed some new virus protection software and in the process stepped in my firewall and my machine got a couple of bugs - 1 virus, 1 worm. Had to reformat and start over, but think I saved my iTunes library (thank goodness!) in the process. Have several questions...
1. I have not sync'd my iPod since I reformatted and reinstalled iTunes and reloaded music library last night. I did sync during the time that I was trying to get rid of the virus/worm. Also copied my entire library to the iPod during the process in an effort to save my music to as many places as possible. Just looked at my iPod this morning re: music and noticed that many songs are just gone ... What is your best advice about how to clean up the iPod? All of my songs appear to be there in iTunes... Do not want to connect it to the computer if worm is living on it ...
2. Seem to have lost my playlists in the restore - is there anywhere that they would have been stored in the iTunes Music folder? I did not see anywhere right off...
3. When I did the reload of my iTunes library (did this by authorizing newly formatted hard drive, pointing to the new location of the iTunes Music folder, setting "copy music when imported" to Off, and re-imported the iTunes Music folder) all my video podcasts came in as Music - they do not show up in my podcasts list in iTunes. Note, however, that the podcasts list seems to show the correct count of podcasts next to the word "Podcasts" though... Any ideas about how to clean that up?
Any and all feedback would be appreciated.
Thanks, Verna

OK - so fixed my own problems after some doing (except for the playlists)...
Podcasts - Navigated to a single video podcast in the iTunes Music folder and did an Open With and selected iTunes. Stopped playing it and exited iTunes. Went back into iTunes and all video podcasts now appeared in list. Did the same for the audio podcast that I get - same thing happened, once I played one audio podcast, they showed up in iTunes on next startup.
Messed up iPod - based on conversation with a coworker, I reformatted the iPod using Windows format FAT32. Once I did that, I connected it to iTunes and did a RESTORE to factory settings. Then I synced and now seem to have everything back in working order...
Thanks anyway!
Verna

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