After reinstall, permissions issues even though they say read-write for owner

So I spent all day yesterday rebuilding my system after a power surge from a tripped breaker fried my old hard drive (so much for surge protectors).
Now when I try to register a software plug in, I get an error saying "Access denied. Please check permissions on /Library/Preferences/ [the software in question, it doesn't matter]".
And then, with Safari, when I try to access any website that requires Java applets, I get an error saying that the applet won't load properly, even though I've updated to the most recent version of Java. I'm pretty sure this is because the Java applets are not being allowed to write data to my /Library/Preferences/ folder (or maybe just any folder in the /Library/ folder).
When I run Disk Utility and repair permissions, I'm getting the exact same messages every single time, so even though it's saying the permissions are getting repaired, clearly it's not saving those repairs.
I'm 99% sure that this is a permissions issue following the restore from a previous Time Machine save -- I've seen this before and found a fix involving Terminal commands, but I can't for the life of me find the fix anymore.
I have temporary workarounds for the moment (though it's kind of a pain to have to re-register this software every single time I open the application, and I can have co-workers access the websites that require the Java applets to work, but that's inconvenient for all around), so it's not a pressing issue, but any help tracking down what Terminal commands I should use to solve this issue will be greatly appreciated.

Found the solution...basically the permissions are not automatically cascaded down to sub folders and files so you have to do the following... modified from https://discussions.apple.com/thread/2743520?start=0&tstart=0
On the folder that you would like to change, select the Get Info and then click on the cogwheel at the bottom of the Get Info dialog.
Click on the menu pick "Apply to enclosed items ..." and confirm the warning message.
Then the same read & write permissions are applied to all the subfolders of the selected folder.

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http://technet.microsoft.com/en-us/library/jj219422.aspx
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http://i.imgur.com/1eMxUlY.jpg
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http://i.imgur.com/amZmxAT.jpg
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http://i.imgur.com/fxbWEvb.jpg
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http://i.imgur.com/0LeS05z.jpg
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http://i.imgur.com/QV1afuc.jpg
vs
http://i.imgur.com/PxgSmUc.jpg
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So it looks like the config xml files are the best option
http://blogs.technet.com/b/office_resource_kit/archive/2013/12/02/announcing-app-v-5-0-sp2-support-for-office-2013-volume-licensing-editions.aspx
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<Application Id="[(AppVPackageRoot}]\office15\MSACCESS.EXE" Enabled="false">
<VisualElements>
<Name>Access 2013</Name>
<Icon />
<Description />
</VisualElements>
</Application>
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Non–Visible printer :
_printer._tcp.local PTR IN 7200 10.125.30.223 5820.05 Wed Mar 18 13:24:26 2015
_pdl-datastream._tcp.local PTR IN 7200 10.125.30.223 6112.25 Wed Mar 18 13:24:26 2015
_ipp._tcp.local PTR IN 7200 10.125.30.223 5888.15 Wed Mar 18 13:24:26 2015
_http._tcp.local PTR IN 7200 10.125.30.223 6293.88 Wed Mar 18 13:24:26 2015
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hp LaserJet 4250 [ED487E]._printer._tcp.local TXT IN 240 10.125.30.223 205.14 Wed Mar 18 13:24:26 2015
hp LaserJet 4250 [ED487E]._printer._tcp.local TXT IN 240 10.125.30.223 197.18 Wed Mar 18 13:24:26 2015
hp LaserJet 4250 [ED487E]._printer._tcp.local TXT IN 240 10.125.30.223 196.42 Wed Mar 18 13:24:26 2015
hp LaserJet 4250 [ED487E]._printer._tcp.local TXT IN 240 10.125.30.223 208.15 Wed Mar 18 13:24:26 2015
hp LaserJet 4250 [ED487E]._pdl-datastream._tcp.local SRV/NBSTAT IN 240 10.125.30.223 207.35 Wed Mar 18 13:24:26 2015
hp LaserJet 4250 [ED487E]._pdl-datastream._tcp.local TXT IN 240 10.125.30.223 200.64 Wed Mar 18 13:24:26 2015
hp LaserJet 4250 [ED487E]._ipp._tcp.local SRV/NBSTAT IN 240 10.125.30.223 209.44 Wed Mar 18 13:24:26 2015
Visible-printer :
_printer._tcp.local PTR IN 4500 10.125.26.29 3745.82 Wed Mar 18 13:24:51 2015
_universal._sub._ipp._tcp.local PTR IN 4500 10.125.26.29 3694.14 Wed Mar 18 13:24:51 2015
_ipp._tcp.local PTR IN 4500 10.125.26.29 3628.81 Wed Mar 18 13:24:51 2015
_pdl-datastream._tcp.local PTR IN 4500 10.125.26.29 3616.14 Wed Mar 18 13:24:51 2015
_http._tcp.local PTR IN 4500 10.125.26.29 3793.56 Wed Mar 18 13:24:51 2015
XRX9C934E25C52D.local A IN 120 10.125.26.29 355.03 Wed Mar 18 13:24:51 2015
Xerox WorkCentre 3615 (25:C5:2D)._printer._tcp.local SRV/NBSTAT IN 120 10.125.26.29 130.45 Wed Mar 18 13:24:51 2015
Xerox WorkCentre 3615 (25:C5:2D)._printer._tcp.local TXT IN 4500 10.125.26.29 3670.33 Wed Mar 18 13:24:51 2015
Xerox WorkCentre 3615 (25:C5:2D)._ipp._tcp.local SRV/NBSTAT IN 120 10.125.26.29 389.55 Wed Mar 18 13:24:51 2015
Xerox WorkCentre 3615 (25:C5:2D)._ipp._tcp.local TXT IN 4500 10.125.26.29 3640.60 Wed Mar 18 13:24:51 2015
Xerox WorkCentre 3615 (25:C5:2D)._pdl-datastream._tcp.local SRV/NBSTAT IN 120 10.125.26.29 210.97 Wed Mar 18 13:24:51 2015
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The net 451 issues made it not work after a while but it affected the entire RWW site not just remote access:
http://blogs.technet.com/b/sbs/archive/2014/01/13/troubleshooting-an-unexpected-error-occurred-message-when-using-remote-web-access-to-connect-to-computers.aspx
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My iPhone 5 has someone in Contacts that is not on my iPad or Mac even though they are all connected to my iCloud account how can I re-sycronise them?

my iPhone 5 has someone in Contacts that is not on my iPad or Mac even though they are all connected to my iCloud account how can I re-sycronise them?

Hello Mr Potatohead,
Thank you for the details of the issue you are experiencing with your iCloud Contacts. I recommend reviewing the sections titled "General troubleshooting," "Troubleshooting with iOS devices," and "Troubleshooting iCloud Contacts in Contacts on OS X Mountain Lion or later (or Address Book on OS X Lion)" in the following article for the issue you described:
iCloud: Troubleshooting iCloud Contacts
http://support.apple.com/kb/ts3998
Thank you for using Apple Support Communities.
Best,
Sheila M.

After reinstall, permissions issues even though they say read-write for owner

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