InCopy/InDesign CS3 Assignment Problem

Hello everyone--
For the past three years we've used Version Cue CS3 for workflow on our publication. For the most part its worked fine. Recently though, we've had to get a new computer for an office on the West Coast and a new router on our office on the East Coast (the operating system we use on the East Coast is Windows XP Profesional.) The computer on the West Coast is running Windows 7, and it seems InCopy CS3 installed on it without a problem--until it came time to do our publication.
The way our system is set up is the West Coast machine uses a VPN tunnel to see our network here--so all it really has to do is connect to the Version Cue server's IP address. This set up worked fine when the machine was a Windows XP based machine, but since the changeover, InCopy doesn't seem to be reading the assignment files correctly. For example, on an Indesign File the copy fits fine and dandy in the layout, and the assignment looks okay when I open it up on InCopy over here. When InCopy opens it up on the Windows 7 machine, the body copy is invariably 3-5 lines over and any formatting changes made from the Windows 7 machine, like changing words to italics, won't be reflected on the updated assignments file. (I confirmed this by emailing our West Coast editor the assignment file directly and InCopy CS3 still wasn't reading it correctly.) Also, at one point we apparently lost some big changes made over the weekend but changes like new headlines held. Any ideas on why this is happening?
Also, and I'm not sure this is related, but since we installed our new RV082 router, we've been getting strange "Version Cue server offline messages" every so often, and then when we go into a project Version Cue suddenly reads it as "online and connected" again. InDesign CS3 often hangs whenever we try to open up a file on the Version Cue server. The only way we've been able to get InDesign to start up is to delete the recovery folders and synchronize everything first--this, needless to say, has been a bit of a time waster.
All our programs are CS3 and except for the West Coast machine, all are running Windows XP pro.
Thanks for your help!

We are installing and using the software under the administrator logins.
My main concern is that we purchased computers that have a processor that is incompatible with Adobe InCopy/InDesign CS3. We purchased two types of PC's, some with AMD Atholon II processors and some with Intel Core2 vpro processors. InDesign/Incopy CS3 were going to go on the Intel's (more power computer) and the InCopy was going to only go on the AMD's.
Prior to receiving the CS3 versions of the software, I hadn't been aware that was the version we were being assigned by our corporate office. After looking at the requirements of CS3 on the adobe site, it only mentions Intel Processors as basic requirements.
(We purchasd the computers with AMD's to save some money....the users requiring InCopy didn't need "as much computer" as the InDesign users).
Could the processor be the problem?

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