Disappearing PDF file after saving work in Acrobat Pro 9?

I use Acrobat Pro 9 to do markups. Some of the files may be as large as 2,000 pages. At various points, I save my work. Sometimes, however, I save my work, close the program. I come back later and discover that the PDF file that I working seems to have vanished. It's not in Recyle Bin and searching for it, does not bring it up. There isn't even an icon. When this happens, all that remains are aabxxx 's in Recent Places. Sometimes if I am lucky, I can somehow generate another PDF file. Sometimes not.
I know that it is possible I could strike the wrong key and not save my work. But this has happened often where that something else be the reason.. I have looked for solutions to this problem in the past and have not been able to find any.  I currently am using Windows 7 with IE9
Any ideas? Thanks.

Thank you for your help and suggestions. I put in the browser info, but I wasn't sure if that would be helpful. I have a lot of problems with IE9 and using Microsoft Word and Excel.. MS Office 2010 is 64-bit.  The version of Windows 7 I have is 64-bit. What happened is that I began working for this one publisher, AA9 was the version in use and that was I was instructed to use It was also just before the release of AAX.
Do you think that the 32-bit/64-bit difference is what could be causing the issue?
I put off going to a new version because of the cost and the fact that I wouldn't have time to learn the current version. I have a lot of projects right now and scheduling is tight.

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