Imported MP3s (mostly from Amazon) getting corrupted by iTunes?

I have a relatively large collection (~12000 songs) managed by iTunes. Recently, I have been having major problems with MP3s, mostly downloaded from Amazon, getting corrupted by iTunes. By corrupted, I mean that the song has skips and weird digital artifacts that I haven't had problems with since the very early (pre-1999) days of using Napster. If you've heard this before, you'll probably agree that it's hard to describe, but the song basically goes off-beat for a split second, can sound like a warble machine, and sometimes has very harsh ear-popping noises.
This issue just recently started happening - I want to say within the last 3-4 weeks. I don't want to think that it's the recent upgrade to iTunes, but here is my thought:
I think that iTunes is modifying my MP3s, particularly the ones with star ratings, but also other files. Once edited, many seem to be corrupt. For the ones from Amazon, I've been able to download replacement versions (after getting their cust. service to re-enable the download) and the songs play fine in Winamp and WMP, until I play them in iTunes. Then they skip and blip all over the place in all 3 programs! The file size is changed by iTunes, often to a smaller file size (seems weird, if it's adding tag info?).
ANY help is appreciated. I'm about ready to stop using iTunes, change all my files to read-only, and find another way to upload to my iPods.
Thoughts?

Are you positive they didn't import, or is it just that there aren't where you expect to find them? The thing about wav files is they don't accept tags, so if you import them they will just get added under the filename.
I would just copy across the whole media folder with libraries and all, then start iTunes with the option key held down and point it at the media folder. This will just use the library in its new location and you don't have to import, etc.

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