Can iMac not waking from sleep be caused be a corrupt file

I have had my 27" iMac from July of 2011 (running Montain Lion, 8 GB RAM, 2TB hardrive, 3.4 GHz,Intel i7) for over a year and a half and ever since I bought it, it has had a problem waking from sleep. I can hear the computer running, but when I click the mouse, keyboard, or power button, it stays asleep and I am forced to do a hard shut down. Apple has been trying to fix the issue, but to no success. They have replaced the hard drive, logic board, usb ports, RAM, mouse and keyboard, but it still happens. They finally threw in the towel and are replacing the machine. They offered to transfer all of our files (jpgs, mp3s, docs, videos, etc), but one thought occurred to me... what if the sleep issue is caused by a corrupt file? I highly doubt that is the case, but wonder if any of the experts out here would know better than I.
If we didin't have the data transfered, we would just keep it on an external hard drive instead. But, I would assume that it wouldn't matter if the files were on internal vs. external because either way, the computer would access the files. That being the case, if the sleep issue was caused by a corrupt file, the computer would still access it on the external and the sleep issue would resurface.
So, 2 questions:
Can a corrupt file cause the sleep issue?
If it is true that a corrupt file can cause the sleep issue, would it matter if the corrupt file was accessed from an external drive vs. internal drive?
Thanks so much!
Chris

Please read this whole message before doing anything.
This procedure is a diagnostic test. It’s unlikely to solve your problem. Don’t be disappointed when you find that nothing has changed after you complete it.
The purpose of the test is to determine whether your problem is caused by third-party system modifications that load automatically at startup or login.
Disconnect all wired peripherals except those needed for the test, and remove all aftermarket expansion cards. Boot in safe mode* and log in to the account with the problem. The instructions provided by Apple are as follows:
Shut down your computer, wait 30 seconds, and then hold down the shift key while pressing the power button.
When you see the gray Apple logo, release the shift key.
If you are prompted to log in, type your password, and then hold down the shift key again as you click Log in.
*Note: If FileVault is enabled under OS X 10.7 or later, or if a firmware password is set, or if the boot volume is a software RAID, you can’t boot in safe mode. Safe mode is much slower to boot and run than normal, and some things won’t work at all, including wireless networking on certain Macs. The next normal boot may also be somewhat slow.
The login screen appears even if you usually log in automatically. You must know your login password in order to log in. If you’ve forgotten the password, you will need to reset it before you begin. Test while in safe mode. Same problem? After testing, reboot as usual (i.e., not in safe mode) and verify that you still have the problem. Post the results of the test.

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And Lucky Me, I have been able to replicate this behavior on one of other Macs (imac 2011, on 10.8.5). I also see errors on 2 separate Windows file servers on the domain (Event ID: srv 2012).
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Nov 14 11:48:12 prepressmac2 kernel[0]: Sandbox: sandboxd(1050) deny mach-lookup com.apple.coresymbolicationd
Nov 14 11:48:12 prepressmac2.cutpasteandprint.net sandboxd[1050] ([1049]): rpcsvchost(1049) deny file-read-data /private/var/root/Library/Preferences/ByHost/.GlobalPreferences.037506C4-0B10-5 70D-A7B6-B3B8F7AE0CC6.plist
Nov 14 11:48:12 prepressmac2.cutpasteandprint.net sandboxd[1050] ([1049]): rpcsvchost(1049) deny file-read-data /private/var/root/Library/Preferences/.GlobalPreferences.plist
Nov 14 11:48:13 prepressmac2.cutpasteandprint.net nsupdate[1055]: krb5_sendto_context is called on main thread, its a blocking api
Nov 14 11:48:13 prepressmac2.cutpasteandprint.net nsupdate[1055]: gss_init_sec_context is called on main thread, its a blocking api
Nov 14 11:48:13 prepressmac2.cutpasteandprint.net nsupdate[1056]: gss_init_sec_context is called on main thread, its a blocking api
Nov 14 11:48:14 prepressmac2.cutpasteandprint.net nsupdate[1057]: krb5_sendto_context is called on main thread, its a blocking api
Nov 14 11:48:14 prepressmac2.cutpasteandprint.net nsupdate[1057]: gss_init_sec_context is called on main thread, its a blocking api
Nov 14 11:48:14 prepressmac2.cutpasteandprint.net nsupdate[1058]: gss_init_sec_context is called on main thread, its a blocking api
Nov 14 11:48:15 prepressmac2.cutpasteandprint.net nsupdate[1060]: krb5_sendto_context is called on main thread, its a blocking api
Nov 14 11:48:15 prepressmac2.cutpasteandprint.net nsupdate[1060]: gss_init_sec_context is called on main thread, its a blocking api
Nov 14 11:48:16 prepressmac2.cutpasteandprint.net nsupdate[1061]: gss_init_sec_context is called on main thread, its a blocking api
Nov 14 11:48:17 prepressmac2 com.apple.launchd[1] (com.apple.smb.preferences): Throttling respawn: Will start in 5 seconds
Nov 14 11:48:17 --- last message repeated 2 times ---
Nov 14 11:48:17 prepressmac2.cutpasteandprint.net nsupdate[1063]: krb5_sendto_context is called on main thread, its a blocking api
Nov 14 11:48:17 prepressmac2.cutpasteandprint.net nsupdate[1063]: gss_init_sec_context is called on main thread, its a blocking api
Nov 14 11:48:18 prepressmac2.cutpasteandprint.net nsupdate[1067]: gss_init_sec_context is called on main thread, its a blocking api
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Nov 14 11:48:19 prepressmac2.cutpasteandprint.net nsupdate[1068]: gss_init_sec_context is called on main thread, its a blocking api
Nov 14 11:48:19 prepressmac2.cutpasteandprint.net nsupdate[1069]: gss_init_sec_context is called on main thread, its a blocking api
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Nov 14 11:48:22 prepressmac2.cutpasteandprint.net digest-service[1048]: digest-request: init request
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Nov 14 11:48:22 prepressmac2 kernel[0]: smb_iod_reconnect: Reconnected share PREPRESS with server GAIA
Nov 14 11:48:32 prepressmac2.cutpasteandprint.net ManagedClient[1077]: ODUGetMCXRecordWithCache(): record unique ID for 'PrePressMac2' not set
Nov 14 11:48:32 prepressmac2.cutpasteandprint.net ManagedClient[1077]: ODUGetMCXRecordWithCache() Accessing network user record from Active Directory not allowed because no authentication information was supplied.
Nov 14 11:56:25 prepressmac2 com.apple.launchd.peruser.1997381720[389] ([0x0-0x4a04a].com.adobe.InDesign[630]): Exited: Terminated: 15
Nov 14 11:56:34 prepressmac2.cutpasteandprint.net spindump[1100]: Saved hang report for Adobe InDesign CS5.5 version 7.5.3.333 (7530) to /Library/Logs/DiagnosticReports/Adobe InDesign CS5.5_2013-11-14-115634_PrePressMac2.hang
This is from the 2011 iMac, and I see something very similar to this on the 2009 machine.
I continue to think this is a software issue related to 10.8.5 and Adobe CS (CS5 on the 2009 machine and CS 5.5 on the 2011) as this appears to have come up only since the recent update.
Any help would be appreciated.

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