InDesign CS5 and Windows 7 crash on link updating

I've got a super-frustrating problem here, hoping someone can help.
I tried to make my documentation workflow easier by linking an Illustrator file, using the 30 layers in the AI file along with Object States in Indesign to control image display on each page. This workflow allows me to make one AI file and setup my states in with InDesign, then I just go through each page of my document and choose the state I want, etc. Problem is, when I make a small change to the AI file I get 3000+ links that need updating. Normally I'd figure no big deal, click to fix all and go make a coffee. Problem is IND gets all the way through the long process and then crashes! My only way to update the links without crashing is to select groups much smaller than the whole and update each group. I try to update one page at a time, and that's roughly 100 links. This takes quite some time.
Some other things to note. My document is probable a higher resolution than I needed, but going back and rebuilding smaller would take more time than I'd like to spend. Also, I deleted the preferences hoping it would fix things but it did not. Lastly, I setup display options for my links panel and clipboard handling but the settings don't seem to save next time I open IND, how do I save these prefs???

Cross linking to this article on macrumors that has more content and some possible solutions:
http://forums.macrumors.com/showthread.php?t=720924

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Indesign CS5 and CS6 crashing

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http://pastebin.com/mWyFgWVv
Crashed Thread: 0 Main Thread Dispatch queue: com.apple.main-thread
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http://pastebin.com/B3jJM7cr
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Is Universal Type Server updated to the latest version? Is InDesign the only program you're facing issues with? Are you working with the document that is located in a network location? Try saving the file locally to your computer and see if you can replicate the crash. Clean the InDesign cache location by dragging the en_US folder from the following location: Macintosh HD/Users/Username/Library/Caches/Adobe InDesign/version 7.0 or version 8.0/ for both CS5 and CS6. If you can't see the Library, then use the Go menu of the Finder holding down the Alt key on the keyboard to make the Library visible inside the Go menu and navigate to it that way.
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I'm sorry EvBurk, what you want is intended not to work.
All Adobe's promotional material concerning InDesign and Digital Publishing (including the above "official statement") carefully uses verbs like "create" or "produce". But they never mention "distribute" or "spread", without explicitly referring to their exclusive hosting services. The whole Folio thing (in contrast to the former "issue" format) revolves around not giving you any chance of physically exporting, managing or owing the folio file itself. It's always somewhere on Adobe's or Apple's servers, or on your iPad, which is also as shut as a vault. So there's no way to export a folio file and toss it around like a pdf or jpeg. All you can do (without a paid distribution) is "share" your folio with some others, under the idea of "testing" and "reviewing". But this can be a cumbersome method. And even when paid (for the app), it's still difficult to distribute it outside Apple's or Android's market.
More than a year ago (in the middle of the Flash-on-iOS debate) Adobe users, developers, bloggers, and evangelists heavily criticized Apple's "walled garden". Adobe literally stated "We Love Apple - What we don't love is anybody taking away your freedom to choose what you create, how you create it, and what you experience on the web." Well, you could say now: "I love Adobe, but what I don't love is Adobe taking away my freedom to own my files, and distribute them on my own terms." They let us create, but not spread our ideas. It's like giving you a typewriter and copier, that only works with Adobe stock paper. Like giving you a voice and an instrument, but only allowing you to sing and play in some walled gardens (dress code: Apple ID) or secluded shed (invitation only).
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Bob,
I have to feel that you aren't really reading my posts. While I did mention that our reporters and editor lessentially use InCopy for a word processing program, I did specifically mention in my last post that we use the program for exactly what it was originally intended, for reporters to write and edit, for designers to layout the text, and for writers/and or correction people to get into the files and fix problems - up until the last minute, so yes, we do need to use InCopy, in the manner we were told it was developed for. We don't use it for viewing layouts - that's what InDesign is for.
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Daria

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yes i think it's the latest but anyway i tried also with the previous cs5 AND now with the cs5.5 and the problem it's the same, i just uninstalled and reinstalled the complete cs this friday, with updates, i also used the adobe cleaner in the process, but it gave me the same result... yes it happens with every kind of objects, images, shapes, text boxes but not with texts.. i will try with replacing my preferences but i thought that uninstalling everything would have removed them in any case... oh and photoshop started giving that problem again too.. thank you anyway

InDesign CS5 and Windows 7 crash on link updating

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